diff --git a/README.md b/README.md index 645f5f5..8d6d788 100644 --- a/README.md +++ b/README.md @@ -1,3 +1,7 @@ +[![Powered by the ROBOT](https://img.shields.io/static/v1?label=Powered%20by&message=ROBOT&color=green&style=flat)](http://robot.obolibrary.org/) + + + # OMRSE -- The Ontology for Modeling and Representation of Social Entities Shield: [![CC BY 4.0][cc-by-shield]][cc-by] @@ -41,9 +45,11 @@ See [documentation](docs/ReleaseWorkflow.md). ## List of Publications -Diller M, Hogan WR. An Ontological Representation of Money with a View Toward Economic Determinants of Health. Proceedings http://ceur-ws. org ISSN. 2022;1613:0073. Link: https://icbo-conference.github.io/icbo2022/papers/ICBO-2022_paper_8682.pdf +Dowland SC, Smith B, Diller MA, Landgrebe J, Hogan WR. Ontology of language, with applications to demographic data. Applied Ontology. 2023;18:239-62. http://doi.org/10.3233/AO-230049 + +Diller M, Hogan WR. An Ontological Representation of Money with a View Toward Economic Determinants of Health. Proceedings of the International Conference on Biological and Biomedical Ontology (ICBO) 2022;1613:0073. Link: https://icbo-conference.github.io/icbo2022/papers/ICBO-2022_paper_8682.pdf -Dowland SC, Hogan WR. Using Ontologies to Enhance Data on Intimate Partner Violence. Link: https://icbo-conference.github.io/icbo2022/papers/ICBO-2022_paper_6874.pdf +Dowland SC, Hogan WR. Using Ontologies to Enhance Data on Intimate Partner Violence. Proceedings of the International Conference on Biological and Biomedical Ontology (ICBO). Link: https://icbo-conference.github.io/icbo2022/papers/ICBO-2022_paper_6874.pdf Hicks A, Hanna J, Welch D, Brochhausen M, Hogan WR. The ontology of medically related social entities: recent developments. Journal of Biomedical Semantics. 2016 Dec;7(1):1-4. Link: https://jbiomedsem.biomedcentral.com/articles/10.1186/s13326-016-0087-8 diff --git a/omrse-base.json b/omrse-base.json index f57fb5b..c792fc3 100644 --- a/omrse-base.json +++ b/omrse-base.json @@ -70,21 +70,160 @@ "val" : "This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's \"meaningful use\" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-03-22" + "val" : "2024-08-09" } ], - "version" : "http://purl.obolibrary.org/obo/omrse/releases/2024-03-22/omrse-base.json" + "version" : "http://purl.obolibrary.org/obo/omrse/releases/2024-08-09/omrse-base.json" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/IAO_0000115", - "lbl" : "definition", - "type" : "PROPERTY" + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000032", + "type" : "CLASS" }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000119", - "lbl" : "definition source", - "type" : "PROPERTY" + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000532", + "type" : "CLASS" }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000412", - "lbl" : "imported from" + "id" : "http://purl.obolibrary.org/obo/BFO_0000015", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000016", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000020", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000023", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000027", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000029", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000030", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000031", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000034", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000038", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000040", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000145", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000148", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000182", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GEO_000000400", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0007610", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0008150", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000001", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000005", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000007", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000027", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000028", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000030", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000033", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000100", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000104", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000310", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000416", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000572", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000578", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0020022", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0021001", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0021003", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0021009", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/MF_0000031", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_9606", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OAE_0000067", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OBIB_0000667", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OBIB_0000701", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OBIB_0000710", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OBI_0000011", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OBI_0000245", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OBI_0100026", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OBI_0200000", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OBI_0600052", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OGMS_0000097", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OGMS_0000100", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OGMS_0000102", + "type" : "CLASS" }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000000", "lbl" : "social security number", @@ -347,26 +486,6 @@ "val" : "Amanda Hicks" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000020", - "lbl" : "obsolete is-aggregate-of", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "We anticipate BFO 2.0 including and defining this relation. When it does, we will obsolete this property and declare it equivalent to the BFO 2.0 relation.\n" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "BFO relation takes precedence." - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000021", - "lbl" : "obsolete is-component-of-aggregate", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "At the instance level, this relation is the named inverse of is-aggregate-of.\n\nAt the type level, however, not so.\n\nWe expect BFO 2.0 to have this relation as well, and we will obsolete this property and declare it equivalent to BFO's version when BFO 2.0 comes out." ], - "deprecated" : true - } }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000022", "lbl" : "aggregate of objectual organisms", @@ -1004,10 +1123,6 @@ "val" : "The following definition for 'injured patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering one or more injuries." } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000068", - "lbl" : "is administered by", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000069", "lbl" : "burn patient role", @@ -1027,14 +1142,6 @@ "val" : "burn patient" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000070", - "lbl" : "is enrolled in school", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000071", - "lbl" : "is admitted to hospital", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000072", "lbl" : "physiatrist role", @@ -1157,15 +1264,6 @@ "val" : "Amanda Hicks" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000080", - "lbl" : "U.S. Census PUMS serial number", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The PUMS serial number assigned to a housing unit, which is only unique within each state, and which explicitly links the housing unit record with person records in PUMS data." - } - } }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000081", "lbl" : "US census householder role", @@ -1762,23 +1860,6 @@ "id" : "http://purl.obolibrary.org/obo/OMRSE_00000135", "lbl" : "gender identification process", "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000136", - "lbl" : "date", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "The only valid string values for this property are ISO 8601 formatted date strings in extended form. It is allowable specify only the year, e.g. '2016' but only when the 1D temporal region references the entire year. Ditto for month, e.g. 2016-04 is acceptable but only if it references the entire interval of that month." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000137", - "lbl" : "time of day", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "time" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000138", "lbl" : "obsolete female gender identity datum", @@ -2039,10 +2120,6 @@ "id" : "http://purl.obolibrary.org/obo/OMRSE_00000166", "lbl" : "home health care encounter", "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000167", - "lbl" : "provides service", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000168", "lbl" : "obsolete questions asking process", @@ -3576,38 +3653,6 @@ "val" : "S. Clint Dowland" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000247", - "lbl" : "is abuse of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation between an abusive behavior and one upon whom it is inflicted." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000248", - "lbl" : "has aggressor", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation between an abusive behavior and one who inflicts it upon someone or something else." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000249", "lbl" : "birth attendant role", @@ -3817,15 +3862,6 @@ "val" : "William R. Hogan" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000260", - "lbl" : "lives in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relation between a household and a material entity that the household stores their possessions in and sleeps in habitually." - } - } }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000262", "lbl" : "categorization scheme", @@ -3845,44 +3881,6 @@ "val" : "William R. Hogan" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000263", - "lbl" : "demarcates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation in which a categorization scheme stands to each category into which it partitions things." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000264", - "lbl" : "demarcated by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation in which a category stands to the categorization scheme that demarcates it as a category." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00000265", "lbl" : "social categorization scheme", @@ -3998,12 +3996,12 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000272", - "lbl" : "has primary data subject", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000274", + "lbl" : "personal data disclosure", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relation in which a data item stands to the person it is both about and primarily associated with." + "val" : "Communication in which a person reports some data items about either that person or another person." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", @@ -4017,88 +4015,12 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000273", - "lbl" : "primary data subject of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000277", + "lbl" : "subjective representation", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The inverse of has primary data subject." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000274", - "lbl" : "personal data disclosure", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Communication in which a person reports some data items about either that person or another person." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000275", - "lbl" : "has reporter", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000276", - "lbl" : "reporter of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The inverse of has reporter." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000277", - "lbl" : "subjective representation", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Cognitive representation in which the representation’s bearer is represented as being its bearer." + "val" : "Cognitive representation in which the representation’s bearer is represented as being its bearer." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", @@ -4365,67 +4287,32 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Afaraf" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Qafar af" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Qafaraf" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "’Afar Af" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", "val" : "non-binary gender identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002025", - "lbl" : "ISO 639-1 code", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "ISO 639-1 assigns two-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-1 code that designates them in that standard system." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-1 code" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002026", - "lbl" : "ISO 639-2/B code", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "ISO 639-2/B assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-2/B ('B' is for \"bibliographic applications\") code that designates them in that standard system." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-2/B code" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002027", - "lbl" : "ISO 639-2/T code", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "ISO 639-2/T assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-2/T ('T' is for \"terminology applications\") code that designates them in that standard system." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-2/T code" + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002025", + "val" : "aa" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002028", - "lbl" : "ISO 639-3 code", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "ISO 639-3 assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-3 code that designates them in that standard system." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-3 code" + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "aar" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "aar" + } ], + "deprecated" : true } }, { "id" : "http://purl.obolibrary.org/obo/OMRSE_00002029", @@ -5358,1545 +5245,11333 @@ "val" : "Mathias Brochhausen" } ] } - } ], - "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/GO_0003674", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000034" }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008150", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000015" + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000074", + "type" : "CLASS" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000000", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000578" + "id" : "http://purl.obolibrary.org/obo/PCO_0000020", + "type" : "CLASS" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000026" + "id" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteClass", + "type" : "CLASS" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000001", - "pred" : "http://purl.obolibrary.org/obo/RO_0000052", - "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + "id" : "http://purl.obolibrary.org/obo/BFO_0000050", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000002", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002072" + "id" : "http://purl.obolibrary.org/obo/BFO_0000051", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000003", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000002" + "id" : "http://purl.obolibrary.org/obo/BFO_0000054", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000004", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000002" + "id" : "http://purl.obolibrary.org/obo/BFO_0000055", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000005", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000004" + "id" : "http://purl.obolibrary.org/obo/BFO_0000066", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000005", - "pred" : "http://purl.obolibrary.org/obo/RO_0000052", - "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + "id" : "http://purl.obolibrary.org/obo/BFO_0000067", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000006", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000002" + "id" : "http://purl.obolibrary.org/obo/IAO_0000136", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000007", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000023" + "id" : "http://purl.obolibrary.org/obo/IAO_0000219", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000007", - "pred" : "http://purl.obolibrary.org/obo/RO_0000052", - "obj" : "http://purl.obolibrary.org/obo/OBI_0100026" + "id" : "http://purl.obolibrary.org/obo/OBIB_0000735", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000008", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000007" + "id" : "http://purl.obolibrary.org/obo/OBI_0000299", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000009", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000007" + "id" : "http://purl.obolibrary.org/obo/OBI_0000312", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000010", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002072" + "id" : "http://purl.obolibrary.org/obo/OBI_0001688", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000010", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000054", - "obj" : "http://purl.obolibrary.org/obo/OGMS_0000097" + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000008", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "deprecated" : true + } }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000011", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000010" + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000009", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "deprecated" : true + } }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000011", - "pred" : "http://purl.obolibrary.org/obo/RO_0000052", - "obj" : "http://purl.obolibrary.org/obo/OBI_0100026" + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000048", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000012", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000010" + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000020", + "lbl" : "obsolete is-aggregate-of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "We anticipate BFO 2.0 including and defining this relation. When it does, we will obsolete this property and declare it equivalent to the BFO 2.0 relation.\n" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "BFO relation takes precedence." + } ], + "deprecated" : true + } }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000013", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000012" + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000021", + "lbl" : "obsolete is-component-of-aggregate", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "At the instance level, this relation is the named inverse of is-aggregate-of.\n\nAt the type level, however, not so.\n\nWe expect BFO 2.0 to have this relation as well, and we will obsolete this property and declare it equivalent to BFO's version when BFO 2.0 comes out." ], + "deprecated" : true + } }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000013", - "pred" : "http://purl.obolibrary.org/obo/RO_0000052", - "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000068", + "lbl" : "is administered by", + "type" : "PROPERTY", + "propertyType" : "OBJECT" }, { - "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000014", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000012" + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000070", + "lbl" : "is enrolled in school", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000071", + "lbl" : "is admitted to hospital", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000167", + "lbl" : "provides service", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000247", + "lbl" : "is abuse of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Relation between an abusive behavior and one upon whom it is inflicted." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000248", + "lbl" : "has aggressor", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Relation between an abusive behavior and one who inflicts it upon someone or something else." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000260", + "lbl" : "lives in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "A relation between a household and a material entity that the household stores their possessions in and sleeps in habitually." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000263", + "lbl" : "demarcates", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Relation in which a categorization scheme stands to each category into which it partitions things." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000264", + "lbl" : "demarcated by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Relation in which a category stands to the categorization scheme that demarcates it as a category." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000272", + "lbl" : "has primary data subject", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Relation in which a data item stands to the person it is both about and primarily associated with." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000273", + "lbl" : "primary data subject of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "The inverse of has primary data subject." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000275", + "lbl" : "has reporter", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000276", + "lbl" : "reporter of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "The inverse of has reporter." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0000052", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0000053", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0000056", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0000057", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0000058", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0000059", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0000085", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002012", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002083", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002087", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002217", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002218", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002223", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002229", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002350", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002351", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002608", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000136", + "lbl" : "date", + "type" : "PROPERTY", + "propertyType" : "DATA", + "meta" : { + "comments" : [ "The only valid string values for this property are ISO 8601 formatted date strings in extended form. It is allowable specify only the year, e.g. '2016' but only when the 1D temporal region references the entire year. Ditto for month, e.g. 2016-04 is acceptable but only if it references the entire interval of that month." ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000137", + "lbl" : "time of day", + "type" : "PROPERTY", + "propertyType" : "DATA", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "time" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000508", + "lbl" : "Abkhazian", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Аҧсуа бызшәа" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Аҧсшәа" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002025", + "val" : "ab" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "abk" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "abk" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000509", + "lbl" : "Achinese", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "بهسا اچيه" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "ace" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "ace" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000510", + "lbl" : "Acoli", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Lwo" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "ach" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "ach" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000511", + "lbl" : "Adangme", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : 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"http://purl.obolibrary.org/obo/OMIABIS_0000008", "pred" : "subPropertyOf", @@ -7112,8 +16787,6 @@ "pred" : "http://purl.obolibrary.org/obo/OMRSE_00000263", "obj" : "http://purl.obolibrary.org/obo/OMRSE_00000023" } ] - }, { - "predicateId" : "http://purl.obolibrary.org/obo/BFO_0000054" }, { "predicateId" : "http://purl.obolibrary.org/obo/OMRSE_00000260", "domainClassIds" : [ "http://purl.obolibrary.org/obo/OMRSE_00000076" ], diff --git a/omrse-base.obo b/omrse-base.obo index 9b873cc..29d55a6 100644 --- a/omrse-base.obo +++ b/omrse-base.obo @@ -1,33 +1,34 @@ format-version: 1.2 -data-version: omrse/releases/2024-03-22/omrse-base.owl +data-version: omrse/releases/2024-08-09/omrse-base.owl +idspace: dc http://purl.org/dc/elements/1.1/ +idspace: foaf http://xmlns.com/foaf/0.1/ +idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# +idspace: protege http://protege.stanford.edu/plugins/owl/protege# +idspace: terms http://purl.org/dc/terms/ remark: This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's \"meaningful use\" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt ontology: omrse/omrse-base -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Daniel Welch" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Selja Seppälä" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Shariq Tariq" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Swetha Garimalla" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "William Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/description "The Ontology for Modeling and Representation of Social Entities (OMRSE) is an OBO Foundry ontology that represents the various entities that arise from human social interactions, such as social acts, social roles, social groups, and organizations." xsd:string -property_value: http://purl.org/dc/elements/1.1/title "Ontology for Modeling and Representation of Social Entities" xsd:string -property_value: http://purl.org/dc/elements/1.1/type IAO:8000001 -property_value: http://purl.org/dc/terms/license "https://creativecommons.org/licenses/by/4.0/" xsd:string -property_value: owl:versionInfo "2024-03-22" xsd:string - -[Term] -id: GO:0003674 -is_a: BFO:0000034 +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "Daniel Welch" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "Selja Seppälä" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Shariq Tariq" xsd:string +property_value: dc:creator "Swetha Garimalla" xsd:string +property_value: dc:creator "William Hogan" xsd:string +property_value: dc:description "The Ontology for Modeling and Representation of Social Entities (OMRSE) is an OBO Foundry ontology that represents the various entities that arise from human social interactions, such as social acts, social roles, social groups, and organizations." xsd:string +property_value: dc:title "Ontology for Modeling and Representation of Social Entities" xsd:string +property_value: dc:type IAO:8000001 +property_value: owl:versionInfo "2024-08-09" xsd:string +property_value: terms:license "https://creativecommons.org/licenses/by/4.0/" xsd:string [Term] id: GO:0008150 @@ -38,7 +39,7 @@ id: OMRSE:00000000 name: social security number def: "Social Security Number(SSN) is a Centrally Registered IDentifier that is a nine-digit number issued to U.S. citizens, permanent residents, and temporary (working) residents under section 205(c) of the Social Security Act, codified as 42 U.S.C. § 405(c). The number is issued to an individual by the Social Security Administration, an independent agency of the United States government. Its primary purpose is to track individuals for Social Security purposes." [] is_a: IAO:0000578 -property_value: http://purl.org/dc/elements/1.1/creator "Cheng Chen(cxchen1@ualr.edu)" xsd:string +property_value: dc:creator "Cheng Chen(cxchen1@ualr.edu)" xsd:string property_value: IAO:0000118 "SSN" xsd:string property_value: IAO:0000119 "http://en.wikipedia.org/wiki/Social_Security_number" xsd:string @@ -160,8 +161,8 @@ name: health care provider organization role def: "A role that inheres in an organization and that is realized by the providing of services in a health care encounter." [] is_a: OMRSE:00000027 ! organization health care role relationship: BFO:0000054 OGMS:0000097 -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000016 @@ -179,7 +180,7 @@ property_value: IAO:0000117 "Amanda Hicks" xsd:string id: OMRSE:00000018 name: obsolete_hospital role def: "A role borne by an organization and realized by providing healthcare services by healthcare professionals of multiple different disciplines of medicine and enabling stationary treatment." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000118 "hospital" xsd:string is_obsolete: true @@ -210,7 +211,7 @@ id: OMRSE:00000024 name: obsolete role in human social processes def: "A role inhering in an entity realized by social interactions in human society." [] comment: Previous definition: A role played by an entity in human social processes. -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -245,7 +246,7 @@ is_a: OMRSE:00000025 ! organization social role id: OMRSE:00000028 name: obsolete geopolitical organization def: "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii)." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "geopolitical organization" xsd:string is_obsolete: true @@ -253,7 +254,7 @@ is_obsolete: true [Term] id: OMRSE:00000029 name: obsolete geopoli organization -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "geopoli organization" xsd:string is_obsolete: true @@ -269,7 +270,7 @@ id: OMRSE:00000031 name: obsolete major administrative subdivision def: "A subnational entity that is the primary organizational member of a nation, is subject to the full set of laws of the nation, enjoys all the privileges established under the laws of the nation, is not a member of any other geopolitical entity, and itself governs a part of the geographical region governed by the nation." [] comment: example: Northern Ireland -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "major administrative subdivision" xsd:string is_obsolete: true @@ -278,7 +279,7 @@ id: OMRSE:00000032 name: obsolete geopolitical dependency def: "A subnational entity that does not possess full political independence or sovereignty as a sovereign state, but remains politically outside of the controlling state and controls a geographical region that is outside the controlling state's integral region." [] comment: Typically, the common feature is that the dependency does not conduct foreign affairs, and relegates this authority to the sovereign state. BUt otherwise, it is largely or completely autonomous relative to the administrative subdivisions. Examples include Puerto Rico (U.S.), Guam (U.S.), Greenland (Denmark), French Polynesia (France), and Falkland Islands (United Kingdom). -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "geopolitical dependency" xsd:string is_obsolete: true @@ -294,7 +295,7 @@ property_value: IAO:0000117 "William R. Hogan\nAmanda Hicks" xsd:string id: OMRSE:00000034 name: obsolete aggregate of sovereign states def: "An aggregate of sovereign states that share some feature in common, but is not an organization nor necessarily the outcome of some treaty among them." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "An aggregate of geopoli organizations that is not itself a sovereign state and whose members are only sovereign states that have some feature in common" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "aggregate of sovereign states" xsd:string @@ -304,7 +305,7 @@ is_obsolete: true id: OMRSE:00000035 name: obsolete aggregate of geopoli organizations def: "An object aggregate that is not itself a geopolitical organization and whose members are only geopolitical organizations that have some feature in common" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "aggregate of geopoli organizations" xsd:string @@ -314,7 +315,7 @@ is_obsolete: true id: OMRSE:00000036 name: obsolete aggregate of dependencies def: "An aggregate of geopoli organizations that is not itself a geopolitical dependency and whose members are only geopolitical dependencies that have some feature in common." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "aggregate of dependencies" xsd:string is_obsolete: true @@ -323,7 +324,7 @@ is_obsolete: true id: OMRSE:00000037 name: obsolete aggregate of major administrative subdivisions def: "An aggregate of geopoli organizations that is not itself a major administrative subdivision and whose members are only major administrative subdivisions that have some feature in common" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "aggregate of major administrative subdivisions" xsd:string is_obsolete: true @@ -355,8 +356,8 @@ id: OMRSE:00000041 name: obsolete intergovernmental organization def: "an intergovernmental organization that has at least three member states, that has activies in at least three states, and that is unified by some formal intergovernmental agreement" [] comment: examples:\nNorth American Free Trade Argreement [NAFTA] , Universal Postal Union [UPU], Oragnaization of American States [OAS], World Bank), Organization of Petroleum exporting countries [OPEC] United Nations [UN[, The World Trade Organization [WTO], The World Health Organization [WHO], UNICEF -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "intergovernmental organization" xsd:string property_value: IAO:0000119 "\"IGOs are organizations whose memebers include at lesat three states, that have activities in several states, and whose members are held together by a formal intergovernmental agreement ... These organizations range in size from three members (North American Free Trade Argreement [NAFTA]) to more than 190 memembers (Universal Postal Union (UPU)]. Memebers may come from primarily one georgraphic regioni (Oragnaization of American States [OAS]) or from all geographic regions (World Bank). although soem IGOs are designed to achieve a single purpose (Organization of Petroleum exporting countries [OPEC]), others have been developed for multiple tasks (United Nations [UN}). ... IGOs are recognized subjects of international law with separate standing fromt heir member states.\" Karns and Mingst I(2004) p. 7" xsd:string @@ -367,8 +368,8 @@ id: OMRSE:00000042 name: obsolete nongovernmental organization def: "a geopolitical organization that is voluntary and private, whose members are individual persons or organizations that come together to acheive a common purpose." [] comment: Examples:\nInternaltion Federation of Red Cross and Red Crescent Societies, Oxfam, CARE, Doctors Without Borders, World Wildlife Fund, Transparency International, Human Rights Watch, Amnesty International, and Save the Children. -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000118 "nongovernmental organizations" xsd:string property_value: IAO:0000119 "NGOs are private voluntary organizations whose members are individuals or associations that come together to acheive a common purpose. Some organizations are formed to advocate a particular cause such as human rights, peace, or envirnomental projetion. Others are established to provide services such as disaster relief, humantarian aid in war-torn socieities, or development assistance. ... National level groups are often called interest or pressure groups, and many of them are now linked to counterpart groups in other countries through transnational networks or federations. International NGOs, like IGOs, may draw their members from one region or several regions, and they may have very specific functions or be multi-functional.\n\nKarns and Mingst (2004) p. 10f." xsd:string is_obsolete: true @@ -377,8 +378,8 @@ is_obsolete: true id: OMRSE:00000043 name: obsolete private governance organizations comment: Examples: private bond-rating agencies such as Moody's Investors Service, International Chamber of Commerce, Worldwide Responsible Apparel Manufacturing Principles, Forest Stewardship -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "private governance organizations" xsd:string property_value: IAO:0000119 "\"Although the very meaning of the term is controversial, it involves authoritative decsionmaking in areas that once were part of national legal frameworks, the government, the sovereign state, or the public sector.\"\n\nKarns and Mingst (2004) p. 14." xsd:string @@ -389,7 +390,7 @@ id: OMRSE:00000044 name: obsolete governmental organization def: "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii). \n\nNote: this definition was taken over from \"geopolitical organization\"." [] comment: IMPORTANT: The label "geopolitical organization" was previously used for OMRSE_00000044 (governmental organization). "geopoli organization" is a label for a new and different class. -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "governmental organization" xsd:string is_obsolete: true @@ -399,7 +400,7 @@ id: OMRSE:00000045 name: obsolete sovereign state def: "A governmental organization with a defined territory on which it exercises internal and external sovereignty, a permanent population, a government, and the capacity to enter into relations with other sovereign states." [] comment: Per Wikipedia, the word 'nation' does not always refer to soverign states. For example, the "nation of Islam". -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "nation" xsd:string property_value: IAO:0000118 "nation state" xsd:string @@ -411,7 +412,7 @@ is_obsolete: true id: OMRSE:00000046 name: obsolete subnational entity def: "a governmental organization that has a local, regional, or territorial government that recognizes a sovereign state as its higher political authority" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "subnational entity" xsd:string @@ -421,7 +422,7 @@ is_obsolete: true id: OMRSE:00000047 name: obsolete supranational entity comment: e.g., the EU -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "supranational entity" xsd:string is_obsolete: true @@ -676,7 +677,7 @@ property_value: IAO:0000119 "http://www.census.gov/cps/about/cpsdef.html\n\nlast id: OMRSE:00000083 name: obsolete OMB ethnic identity datum def: "An ethnic identity datum that is the output of an ethnic identification process that uses OMB terminology for ethnicity or terminology that is mapped the OMB ethnicity terms." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB ethnic identity information content entity @@ -689,7 +690,7 @@ is_a: BFO:0000038 [Term] id: OMRSE:00000085 name: obsolete socio-legal human social role -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "A role that concretizes a socio-lega generically dependent continuant" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true @@ -773,7 +774,7 @@ is_a: BFO:0000038 id: OMRSE:00000098 name: obsolete racial identity datum def: "A racial identity is an information content entity that is the output of some racial identitification process and is intended to be a truthful statement about the genetic or cultural race of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: racial identity information content entity @@ -785,7 +786,7 @@ name: racial identification process id: OMRSE:00000100 name: obsolete ethnic identity datum def: "An ethnic identity datum is an information content entity that is the output of some ethnic identitification process and is intended to be a truthful statement about the cultural or national heritage of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: ethnic identity information content entity @@ -965,7 +966,7 @@ is_a: BFO:0000034 [Term] id: OMRSE:00000124 name: obsolete residential function -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: residence function (OMRSE:00000075) @@ -987,7 +988,7 @@ property_value: IAO:0000118 "discharge process" xsd:string id: OMRSE:00000127 name: obsolete hispanic or latino identity datum def: "An OMB ethnic identity datum that indicates the person identified is of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Hispanic or Latino identity information content entity @@ -996,7 +997,7 @@ replaced_by: OMB Hispanic or Latino identity information content entity id: OMRSE:00000128 name: obsolete not hispanic or latino identity datum def: "An OMB ethnic identity datum that indicates the person identified is not of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB not Hispanic or Latino identity information content entity @@ -1024,8 +1025,8 @@ relationship: OBI:0000299 OMRSE:00000185 ! obsolete OMB racial identity datum id: OMRSE:00000132 name: obsolete identity datum def: "An identity datum is an information content entity that is the output of some identitification process and is intended to be a truthful statement about a person's social identity. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:creator "Amanda Hicks" xsd:string is_obsolete: true replaced_by: social identity information content entity @@ -1033,8 +1034,8 @@ replaced_by: social identity information content entity id: OMRSE:00000133 name: obsolete gender identity datum def: "A gender identity is an information content entity that is the output of some gender identitification process and is intended to be a truthful statement about a person's subjective sense of their gender. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:creator "Amanda Hicks" xsd:string is_obsolete: true replaced_by: gender identity information content entity @@ -1042,7 +1043,7 @@ replaced_by: gender identity information content entity id: OMRSE:00000134 name: identification process is_a: IAO:0021003 -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000135 @@ -1052,7 +1053,7 @@ name: gender identification process id: OMRSE:00000138 name: obsolete female gender identity datum def: "a gender identity datum resulting from a gender identification process in which ‘female’ is selected based on the participant's subjective sense of gender" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: female gender identity information content entity @@ -1073,7 +1074,7 @@ is_a: OMRSE:00000139 ! surgeon role id: OMRSE:00000141 name: obsolete male gender identity datum def: "a gender identity datum resulting from a gender identification process in which ‘male’ is selected based on the participant's subjective sense of gender" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000119 "" xsd:string is_obsolete: true @@ -1085,8 +1086,8 @@ name: human traveling information def: "An information content entity that is about human travel." [] intersection_of: IAO:0000030 intersection_of: IAO:0000136 APOLLO_SV:00000532 -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string property_value: IAO:0000119 "https://github.com/ufbmi/OMRSE/issues/79" xsd:anyURI [Term] @@ -1094,9 +1095,9 @@ id: OMRSE:00000143 name: household identifier intersection_of: IAO:0000028 intersection_of: IAO:0000219 OMRSE:00000076 ! household -property_value: http://purl.org/dc/elements/1.1/contributor "A symbol that denotes a specific household" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "A symbol that denotes a specific household" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000144 @@ -1104,14 +1105,14 @@ name: family identifier def: "A symbol that denotes a family." [] intersection_of: IAO:0000028 intersection_of: IAO:0000219 PCO:0000020 -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000145 name: obsolete self-identity data item def: "an identity datum that has been asserted by the person whom it is about" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true @@ -1221,7 +1222,7 @@ property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] id: OMRSE:00000162 name: obsolete medical advice -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] @@ -1254,7 +1255,7 @@ relationship: BFO:0000066 OMRSE:00000074 ! housing unit [Term] id: OMRSE:00000168 name: obsolete questions asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000198 @@ -1287,7 +1288,7 @@ intersection_of: BFO:0000054 OGMS:0000097 [Term] id: OMRSE:00000173 name: obsolete material information bearer of question text plus answer set -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] @@ -1303,20 +1304,20 @@ is_a: OMRSE:00000163 ! response to a question asking process [Term] id: OMRSE:00000176 name: obsolete identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] id: OMRSE:00000177 name: obsolete ethnic identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000199 [Term] id: OMRSE:00000178 name: obsolete race identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000200 @@ -1329,7 +1330,7 @@ is_a: OMRSE:00000175 ! response to an identity question asking process id: OMRSE:00000180 name: obsolete American Indian or Alaska Native identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB American Indian or Alaska Native identity information content entity @@ -1338,7 +1339,7 @@ replaced_by: OMB American Indian or Alaska Native identity information content e id: OMRSE:00000181 name: obsolete Asian identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Asian identity information content entity @@ -1347,7 +1348,7 @@ replaced_by: OMB Asian identity information content entity id: OMRSE:00000182 name: obsolete black or African American identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the black racial groups of Africa." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB black or African American identity information content entity @@ -1356,7 +1357,7 @@ replaced_by: OMB black or African American identity information content entity id: OMRSE:00000183 name: obsolete Native Hawaiian or other Pacific Islander identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Native Hawaiian or other Pacific Islander identity information content entity @@ -1365,7 +1366,7 @@ replaced_by: OMB Native Hawaiian or other Pacific Islander identity information id: OMRSE:00000184 name: obsolete white identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Europe, the Middle East, or North Africa." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB white identity information content entity @@ -1374,7 +1375,7 @@ replaced_by: OMB white identity information content entity id: OMRSE:00000185 name: obsolete OMB racial identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB racial identity information content entity @@ -1422,10 +1423,10 @@ id: OMRSE:00000192 name: obsolete communication def: "A process in which some participant shares some information content entity about some state of that participant with some other participant." [] comment: The term 'participant' in the definition need not refer to a human agent. -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -1433,10 +1434,10 @@ is_obsolete: true id: OMRSE:00000193 name: obsolete linguistic competence def: "A disposition inhering in a material entity that, if realized, is realized by that material entity’s communicating via some linguistic concretization." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -1444,10 +1445,10 @@ is_obsolete: true id: OMRSE:00000194 name: obsolete language def: "A disposition inhering in a linguistic community that (i) is a maximal aggregate of communicatively compatible linguistic competences, and (ii) if realized, is realized by any and all realizations of those linguistic competences." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string is_obsolete: true @@ -1457,19 +1458,19 @@ name: linguistic community def: "A maximal aggregate of material entities such that each member bears a linguistic competence for the same language." [] is_a: BFO:0000040 relationship: RO:0000053 OMRSE:00002069 ! language -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] id: OMRSE:00000196 name: obsolete expression of preferred language def: "A communication in which some participant states a preference for some communicative process to be in a certain language, and that has a concretization of a preferred language information content entity as its specified output." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -1477,10 +1478,10 @@ is_obsolete: true id: OMRSE:00000197 name: obsolete preferred language information content entity def: "An information content entity that (i) is about some person, some language, and some linguistic competence; and (ii) conveys the language with which that person prefers to communicate within some given context." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -1542,11 +1543,11 @@ name: social identity information content entity def: "An information content entity that is intended to be a truthful statement about some person and whether that person identifies as some particular aspect of social identity—such as a gender, an ethnicity, a race, or a sexual orientation—where the sense of identifying may correspond to either (i) an aspect of one’s cognitive representation of oneself, (ii) how one prefers to be regarded by others within some social context, or (iii) how one chooses to present oneself to others within some social context." [] comment: We include (i)-(iii) to acknowledge that there are different senses of "identify" that are relevant here, and that we may not always be sure which sense the person concretizing the social identity information content entity intended. While (i) concerns how one thinks of oneself, (ii) and (iii) are more focused on one's interactions with others. Importantly, some choose not to share with others how they identify in the sense of (i). For example, one can consider oneself to be some certain gender without either wanting others to know or choosing to present oneself in a corresponding way. We distinguish (ii) and (iii) because one can prefer to be regarded some certain way without attempting to present oneself in any corresponding way. is_a: IAO:0000030 -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1555,11 +1556,11 @@ name: ethnic identity information content entity def: "A social identity information content entity that is about whether some person identifies as some ethnicity." [] comment: Ethnicity is separate from but related to racial identity. It refers more to identifying with a particular culture than with individuals similar in physical appearance. It includes things like Hispanic ethnicity (which spans many nations) and national cultural identities like Irish and ethnic groups within nations such as Catalan and Armenian. is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1568,11 +1569,11 @@ name: OMB ethnic identity information content entity def: "An ethnic identity information content entity that uses OMB terminology for ethnicity or terminology that is strictly mapped onto the OMB ethnicity terms." [] comment: OMB dichotomizes ethnicity into Hispanic or Latino and Not Hispanic or Latino, and ignores all other forms of ethnicity. is_a: OMRSE:00000205 ! ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1581,11 +1582,11 @@ name: OMB Hispanic or Latino identity information content entity def: "An OMB ethnic identity information content entity that is about some person's identifying as Hispanic or Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." [] comment: It comprehends people of Portuguese culture or origin in Brazil. is_a: OMRSE:00000206 ! OMB ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1593,11 +1594,11 @@ id: OMRSE:00000208 name: OMB not Hispanic or Latino identity information content entity def: "An OMB ethnic identity information content entity that is about some person's identifying as neither Hispanic nor Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." [] is_a: OMRSE:00000206 ! OMB ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1605,11 +1606,11 @@ id: OMRSE:00000209 name: gender identity information content entity def: "A social identity information content entity that is about whether some person identifies as some gender." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1617,11 +1618,11 @@ id: OMRSE:00000210 name: female gender identity information content entity def: "A gender identity information content entity that is about some person's identifying as female in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1629,11 +1630,11 @@ id: OMRSE:00000211 name: male gender identity information content entity def: "A gender identity information content entity that is about some person's identifying as male in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1641,11 +1642,11 @@ id: OMRSE:00000212 name: non-binary identity information content entity def: "A gender identity information content entity that is about some person's identifying as non-binary in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1653,11 +1654,11 @@ id: OMRSE:00000213 name: racial identity information content entity def: "A social identity information content entity that is about whether some person identifies as some race." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1665,11 +1666,11 @@ id: OMRSE:00000214 name: OMB racial identity information content entity def: "A racial identity information content entity that uses OMB terminology and definitions for race or terminology that is strictly mapped onto the OMB race terms." [] is_a: OMRSE:00000213 ! racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1678,11 +1679,11 @@ name: OMB American Indian or Alaska Native identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as American Indian or Alaska Native, which is intended to mean having origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." [] comment: This definition corresponds to that used by OMB. It is worth noting that the OMB definition from which this one is derived is problematic, in that it implies that one's race cannot be Native American or Alaskan Native unless one maintains tribal affiliations or community attachment. is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1690,11 +1691,11 @@ id: OMRSE:00000216 name: OMB Asian identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as Asian, which is intended to mean having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1702,11 +1703,11 @@ id: OMRSE:00000217 name: OMB black or African American identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as black or African American which is intended to mean having origins in any of the black racial groups of Africa." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1714,11 +1715,11 @@ id: OMRSE:00000218 name: OMB Native Hawaiian or other Pacific Islander identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as Native Hawaiian or other Pacific Islander, which is intended to mean having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1726,11 +1727,11 @@ id: OMRSE:00000219 name: OMB white identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as white which is intended to mean having origins in any of the original peoples of Europe, the Middle East, or North Africa." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1738,22 +1739,22 @@ id: OMRSE:00000220 name: sexual orientation identity information content entity def: "A social identity information content entity that is about whether some person identifies as having some sexual orientation." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string [Term] id: OMRSE:00000221 name: residence ZIP code information content entity def: "An information content entity that is about some geographical region, in which a postal delivery route denoted by a particular ZIP code is realized, and that is the specified output of a disclosure of residence." [] is_a: IAO:0000030 -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -1761,7 +1762,7 @@ id: OMRSE:00000222 name: debt obligation def: "A directive information entity that prescribes that something will be transferred from some human or organization that is the bearer of a duty holder role to another human or organization that is the bearer of a claimant role." [] is_a: IAO:0000033 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "debt obligation" xsd:string property_value: IAO:0000112 "Three Arrows Capital declared bankruptcy on July 1, 2022 after defaulting on a $665 million debt obligation owed to Voyager Digital." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1771,11 +1772,11 @@ id: OMRSE:00000223 name: disclosure of residence def: "A social act that creates an information content entity that is about some geographical region in which a human being dwells." [] is_a: IAO:0021003 -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -1783,11 +1784,11 @@ id: OMRSE:00000224 name: electronic health record data set def: "A data set whose members are obtained from one or more electronic health records." [] is_a: IAO:0000100 -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brocchausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brocchausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "EHR data set" xsd:string @@ -1801,11 +1802,11 @@ comment: The outcome of the adjudication of a claim in the claims dataset could comment: The reason we say billing data are only part of the input is because we are not conflating the insurance claim with the bill. It is our understanding that the provider’s bill of services is either part of the claim or “attached” to it in some manner, but doesn’t constitute the entire claim itself. comment: The sources of these data are held by insurers or other health plan providers. is_a: IAO:0000100 -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brocchausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brocchausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] @@ -1813,11 +1814,11 @@ id: OMRSE:00000226 name: health care billing data set def: "A data set whose members are obtained from billing-related data sources that (i) are generated by a health care organization as a result of internal administrative processes, and (ii) are about services rendered or materials used during some health care encounter." [] is_a: IAO:0000100 -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1825,7 +1826,7 @@ id: OMRSE:00000227 name: health care administrative process def: "A planned process (i) that is neither a health care process nor an ancillary health care process, and (ii) in which some employee of a health care organization manages, or helps to manage, the performance of tasks that realize the functions of that organization." [] is_a: OBI:0000011 -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000112 "Recording data in an EHR. Financial tasks for a healthcare organization. Scheduling shifts for health care workers." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1834,7 +1835,7 @@ id: OMRSE:00000228 name: principal diagnosis-assignment process def: "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." [] is_a: OMRSE:00000227 ! health care administrative process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1842,7 +1843,7 @@ id: OMRSE:00000229 name: secondary diagnosis-assignment process def: "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about an underlying condition that is distinct from the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." [] is_a: OMRSE:00000227 ! health care administrative process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -1850,12 +1851,12 @@ id: OMRSE:00000230 name: county smoking survey plan specification def: "A survey plan specification that aims to collect information about the smoking behavior or lack thereof of a population on a county level. Concretization of a smoking survey plan that is stratified by county." [] is_a: OBIB:0000701 -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey plan specification." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -1864,12 +1865,12 @@ id: OMRSE:00000231 name: county smoking survey execution def: "A survey execution that realizes the concretization of a smoking survey plan specification that is stratified by county." [] is_a: OBIB:0000710 -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey execution." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -1878,12 +1879,12 @@ id: OMRSE:00000232 name: county smoking survey data def: "Survey data that is the specified output of a county smoking survey execution." [] is_a: OBIB:0000667 -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey data." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -1908,7 +1909,7 @@ id: OMRSE:00000235 name: money def: "A debt obligation between two parties that has part a scalar value specification and whose concretizations indicate that their bearers can be used in a financial transaction or payment of debt, or as a measure of the value of some entity in a financial valuation process or prospective financial valuation process." [] is_a: OMRSE:00000222 ! debt obligation -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "money" xsd:string property_value: IAO:0000112 "Todd does not have enough money to buy more plants at the horticultural club's poinsettia sale." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1918,7 +1919,7 @@ id: OMRSE:00000236 name: currency def: "A material entity that is the bearer of a concretization of money and is created by some governmental organization or on behalf of some governmental organization that has authorized its creation." [] is_a: BFO:0000040 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "currency" xsd:string property_value: IAO:0000112 "US currency is an accepted form of legal tender, not just in the United States, but in many countries around the world, such as El Salvador." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1928,7 +1929,7 @@ id: OMRSE:00000237 name: exchange of ownership def: "A planned process whereby one agent (or active participant) or a group of agents transfer ownership of some property to another agent (or active participant) or group of agents in the process, who in return transfer ownership of some their property to the first agent (or active participant)." [] is_a: OBI:0000011 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "exchange of ownership" xsd:string property_value: IAO:0000112 "Tom exchanged ownership of his computer for Tina's scooter." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1939,7 +1940,7 @@ id: OMRSE:00000238 name: financial transaction def: "A planned process whereby one participant partly or completely fulfills an obligation to another participant by transferring ownership of some other debt obligation, which is typically money." [] is_a: OBI:0000011 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "financial transaction" xsd:string property_value: IAO:0000112 "Apple acquired semiconductors from Samsung in a financial transaction yesterday." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1950,7 +1951,7 @@ id: OMRSE:00000239 name: payment of debt def: "A planned process whereby ownership of some entity of value is transferred by one participant to another to fulfill some obligation, on their behalf, after some service is performed or the ownership of some entity is exchanged." [] is_a: OBI:0000011 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "payment of debt" xsd:string property_value: IAO:0000112 "I made a debt payment with my credit card company yesterday and no longer owe them money." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1960,7 +1961,7 @@ id: OMRSE:00000240 name: financial valuation process def: "A planned process that has as specified output some scalar measurement datum that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some other material entity." [] is_a: OBI:0000011 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "financial valuation process" xsd:string property_value: IAO:0000112 "The financial valuation of Ravi's car today determined that the car is worth $2000." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1970,7 +1971,7 @@ id: OMRSE:00000241 name: prospective financial valuation process def: "A planned process that has as specified output some predicted value that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some material entity at some point in the future." [] is_a: OBI:0000011 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "prospective financial valuation process" xsd:string property_value: IAO:0000112 "The prospective valuation of my company's stock indicates strong optimism for our financial growth over the next few years." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -1980,7 +1981,7 @@ id: OMRSE:00000242 name: intimate partnership def: "Relational quality inhering in persons by virtue of being each other’s spouse, boyfriend/girlfriend, dating partner, or ongoing sexual partner." [] is_a: BFO:0000145 -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -1988,7 +1989,7 @@ id: OMRSE:00000243 name: abusive behavior def: "Behavior that is cruel, violent, demeaning, or invasive." [] is_a: GO:0007610 -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -1996,7 +1997,7 @@ id: OMRSE:00000244 name: psychologically abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: mentally or emotionally harm or exert control over another." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2004,7 +2005,7 @@ id: OMRSE:00000245 name: physically abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: harm, restrain, or coerce another through physical force." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2012,7 +2013,7 @@ id: OMRSE:00000246 name: sexually abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: force or coerce another to participate in a sexual act to which the latter has not freely given consent." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2020,7 +2021,7 @@ id: OMRSE:00000249 name: birth attendant role def: "A health care provider role that is realized in maintaining the health of a human being during their pregnancy and both them and the neonate during labor, delivery, and postpartum." [] is_a: OMRSE:00000012 ! health care provider role -property_value: http://purl.org/dc/elements/1.1/contributor "https://orcid.org/0000-0001-6595-0902" xsd:string +property_value: dc:contributor "https://orcid.org/0000-0001-6595-0902" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "skilled birth attendant role" xsd:string @@ -2029,10 +2030,10 @@ id: OMRSE:00000250 name: linguistic competence information content entity def: "An information content entity that conveys that a particular person has a linguistic competence for a particular language" [] is_a: IAO:0000030 -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2040,10 +2041,10 @@ id: OMRSE:00000251 name: primary language information content entity def: "A linguistic competence information content entity that conveys the language is the one for which the person has their most proficient linguistic competence." [] is_a: OMRSE:00000250 ! linguistic competence information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2051,10 +2052,10 @@ id: OMRSE:00000252 name: language-at-home information content entity def: "A linguistic competence information content entity that conveys the person uses the language at home." [] is_a: OMRSE:00000250 ! linguistic competence information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2062,7 +2063,7 @@ id: OMRSE:00000253 name: religious gathering def: "A social act or aggregate of social acts that include some worship, prayer, or proselytizing." [] is_a: IAO:0021003 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2070,7 +2071,7 @@ id: OMRSE:00000254 name: hospital bed capacity data item def: "A count of the number of patients that some hospital facility has the capacity for." [] is_a: APOLLO_SV:00000032 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2078,7 +2079,7 @@ id: OMRSE:00000255 name: proportion of population in an elementary occupation def: "A data item that is the output of some data transformation that takes as input the number of individuals in a population who are occupation holders and has as output the proportion of those individuals who are classified by the European Skills, Competences, Qualifications and Occupations as door-to-door sales worker, news or street vendors; building cleaning workers; pressers, textile, garment, or related materials; septic tank servicers or sewer pipe cleaners; farmworkers or laborers, crop, nursery, or greenhouse; farmworkers, farm, ranch, or aquacultural animal; agricultural workers, all other; landscaping or groundskeeping workers; grounds maintenance workers, all other; forest or conservation workers; logging workers, all other; fishing or hunting workers; helpers--extraction workers; extraction workers, all other; helpers, construction trades; rail-track laying or maintenance equipment operators; construction laborers; helpers--production workers; production workers, all other; laborers or material movers; refuse or recyclable material collectors; couriers or messengers; material moving workers, all other; aircraft cargo handling supervisors; first-line supervisors of helpers, laborer, or material mover, hand; first-line supervisors of transportation worker, all other; tank car, truck, or ship loaders; cooks, fast food; cooks, short order; food preparation workers; dining room or cafeteria attendants or bartender helpers; dishwashers; food preparation or serving related workers, all other; personal care or service workers, all other; baggage porters or bellhops; maintenance or repair workers, general; installation, maintenance, or repair workers, all other; meter readers, utilities; coin, vending, or amusement machine servicers or repairers; motion picture projectionists; ushers, lobby attendants, or ticket takers; amusement or recreation attendants; locker room, coatroom, or dressing room attendants; and parking attendants." [] is_a: IAO:0000027 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000116 "Currently, the Occupation Ontology (OccO ) only represents occupations as they are defined by O*NET. We define this class extentionally according to the O*NET-defined occupations that map to occupations in ESCO that are classified as elementary occupations." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -2087,15 +2088,15 @@ id: OMRSE:00000256 name: Medicaid policy holder role def: "A policy holder role that inheres in a person who participates in the creation of an insurance policy with a US state Medicaid agency." [] is_a: OMRSE:00000094 ! policy holder role -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string [Term] id: OMRSE:00000257 name: insurance company def: "An insurance organization that is privately owned and that participates in the creation of insurance policies in return for some money from the policy holder." [] is_a: OMRSE:00000093 ! insurance organization -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2103,7 +2104,7 @@ id: OMRSE:00000258 name: private insurance policy holder role def: "A policy holder role that inheres in a person who participates in the creation of an insurance policy with an insurance company." [] is_a: OMRSE:00000094 ! policy holder role -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2111,7 +2112,7 @@ id: OMRSE:00000259 name: US state Medicaid agency def: "A government organization that administers a given US state's Medicaid program by participating in the creation of insurance policies with eligible people and by participating in some payment of debt for a specified aggregate of health care encounters, specified processes (e.g, treatments, diagnostic tests) that are part of those encounters, and material entities used or prescribed during the encounters (e.g., medicine, prosthetics, glasses)." [] is_a: GEO:000000400 -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2119,8 +2120,8 @@ id: OMRSE:00000262 name: categorization scheme def: "Information content entity that characterizes some aggregate of entities as partitioned into distinct subgroups, thereby demarcating them as categories." [] is_a: IAO:0000030 -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2129,8 +2130,8 @@ name: social categorization scheme def: "Categorization scheme that divides humans into groups considered by themselves or others as distinct on the basis of assumed common characteristics." [] is_a: OMRSE:00000262 ! categorization scheme relationship: OMRSE:00000263 OMRSE:00000023 {all_only="true"} ! demarcates collection of humans -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2139,8 +2140,8 @@ name: social category def: "Collection of humans demarcated by some social categorization scheme." [] is_a: OMRSE:00000023 ! collection of humans relationship: OMRSE:00000264 OMRSE:00000265 ! demarcated by social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2148,8 +2149,8 @@ id: OMRSE:00000268 name: racial categorization scheme def: "Social categorization scheme based on characteristics assumed to be biologically hereditary and to result in part from common locality of ancestors." [] is_a: OMRSE:00000265 ! social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2158,8 +2159,8 @@ name: racial category def: "Social category demarcated by some racial categorization scheme." [] is_a: OMRSE:00000267 ! social category relationship: OMRSE:00000264 OMRSE:00000268 ! demarcated by racial categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2167,8 +2168,8 @@ id: OMRSE:00000270 name: ethnic categorization scheme def: "Social categorization scheme based on characteristics that are primarily cultural—such as ancestry, history, national or tribal background, cultural attachments or traditions, past linguistic heritage, religious affiliations, caste, or claimed kinship." [] is_a: OMRSE:00000265 ! social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2177,8 +2178,8 @@ name: ethnic category def: "Social category demarcated by some ethnic categorization scheme." [] is_a: OMRSE:00000267 ! social category relationship: OMRSE:00000264 OMRSE:00000270 ! demarcated by ethnic categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2186,8 +2187,8 @@ id: OMRSE:00000274 name: personal data disclosure def: "Communication in which a person reports some data items about either that person or another person." [] is_a: OMRSE:00002068 ! communication -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2195,8 +2196,8 @@ id: OMRSE:00000277 name: subjective representation def: "Cognitive representation in which the representation’s bearer is represented as being its bearer." [] is_a: MF:0000031 -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2204,8 +2205,8 @@ id: OMRSE:00000278 name: social identity def: "Subjective representation of its bearer as being a member of some social category." [] is_a: OMRSE:00000277 ! subjective representation -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2213,8 +2214,8 @@ id: OMRSE:00000279 name: racial identity def: "Social identity for which the category is a racial category." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2222,8 +2223,8 @@ id: OMRSE:00000281 name: ethnic identity def: "Social identity for which the category is an ethnic category." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2231,8 +2232,8 @@ id: OMRSE:00000282 name: behavioral identity def: "Social identity for which the category is also a behaviorally distinct group defined by its members degree of participation in some type of behavior." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2240,14 +2241,14 @@ id: OMRSE:00000284 name: occupation disposition def: "A disposition that, if realized, is realized when the bearer intends to, and does, exercise abilities and skills in pursuit of obtaining or maintaining an job role." [] is_a: BFO:0000016 -property_value: http://purl.org/dc/elements/1.1/contributor "Damion Dooley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John Beverley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string +property_value: dc:contributor "Damion Dooley" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John Beverley" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2255,15 +2256,15 @@ id: OMRSE:00000285 name: occupation activity def: "A process in which an occupation holder participates that realizes either an occupation disposition or job role." [] is_a: BFO:0000015 -property_value: http://purl.org/dc/elements/1.1/contributor "Damion Dooley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Eric Merrell" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John Beverley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string +property_value: dc:contributor "Damion Dooley" xsd:string +property_value: dc:contributor "Eric Merrell" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John Beverley" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "occupation process" xsd:string @@ -2272,10 +2273,10 @@ id: OMRSE:00000286 name: U.S. veteran role def: "A human role within an organization that inheres in a person who has served in a branch of the U.S. military, is not currently serving in the U.S. military, and the person's service ended in accordance to conditions defined by the U.S. government." [] is_a: OMRSE:00000086 ! human role within an organization -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000119 "38 U.S.C. §101(2), as well as “Determining Veteran Status” by the U.S. Department of Veterans Affairs (VA) Office of Small and Disadvantaged Business Utilization (OSDBU): https://www.va.gov/OSDBU/docs/Determining-Veteran-Status.pdf." xsd:string @@ -2284,9 +2285,9 @@ id: OMRSE:00000500 name: job role data item def: "A data item that is about a person's job role and/or its realization." [] is_a: IAO:0000027 -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint. Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "S. Clint. Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "Can be about any aspect of employment, such as salary, work location, or employer." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "employment data item" xsd:string @@ -2323,13 +2324,21 @@ is_a: IAO:0000027 [Term] id: OMRSE:00000507 +name: Afar name: obsolete non-binary gender identity datum def: "A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender." [] comment: Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.)\n\nExamples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "non-binary gender identity datum" xsd:string property_value: IAO:0000117 "Paul Fabry" xsd:string property_value: IAO:0000117 "William Hogan" xsd:string +property_value: IAO:0000118 "Afaraf" xsd:string +property_value: IAO:0000118 "Qafar af" xsd:string +property_value: IAO:0000118 "Qafaraf" xsd:string +property_value: IAO:0000118 "’Afar Af" xsd:string +property_value: OMRSE:00002025 "aa" xsd:string +property_value: OMRSE:00002026 "aar" xsd:string +property_value: OMRSE:00002027 "aar" xsd:string is_obsolete: true replaced_by: non-binary gender identity information content entity @@ -2536,8 +2545,8 @@ id: OMRSE:00002047 name: kindergarten education program def: "A primary education plan specification that specifies the competencies and information content entities that should be acquired by students in the first year of primary education in the United States." [] is_a: OMRSE:00002034 ! primary education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T12:38:43Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T12:38:43Z" xsd:dateTime property_value: IAO:0000111 "kindergarten education plan specification" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2546,8 +2555,8 @@ id: OMRSE:00002048 name: undergraduate higher education program def: "A higher education plan specification that specifies the awarding of an associates or bachelors degree in the United States or equivalent degrees in other nations, and specifies as a pre-requisite the completion of some secondary education program." [] is_a: OMRSE:00002042 ! higher education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T12:52:46Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T12:52:46Z" xsd:dateTime property_value: IAO:0000111 "undergraduate higher education plan specification" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "undergraduate education program" xsd:string @@ -2559,8 +2568,8 @@ def: "A higher education plan specification that specifies the awarding of a gra comment: Graduate degrees include masters, PhD, MD, PharmD, and other post-graduate professional degrees. To distinguish MS/PhD from the professional ones, subclass this class. comment: The prerequisite degree is at the bachelors level or equivalent. An associates degree is almost never sufficient for entry into graduate education programs. is_a: OMRSE:00002042 ! higher education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:01:34Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:01:34Z" xsd:dateTime property_value: IAO:0000111 "graduate higher education plan specification" xsd:string property_value: IAO:0000118 "graduate education program" xsd:string @@ -2570,8 +2579,8 @@ name: highest level of education is grades 1 through 6 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of first through sixth grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of primary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:23:46Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:23:46Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades one through six socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2581,8 +2590,8 @@ name: highest level of education is grades 7 through 9 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of seventh (7th) through ninth (9th) grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of lower secondary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:27:15Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:27:15Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades seven through nine socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2592,8 +2601,8 @@ name: highest level of education is grades 10 through 12 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of tenth (10th) through twelfth (12th) grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of upper secondary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:27:50Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:27:50Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades ten through twelve socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2603,8 +2612,8 @@ name: highest level of education is completion of undergraduate degree data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some undergraduate degree." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:28:27Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:28:27Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some undergraduate degree socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2614,8 +2623,8 @@ name: highest level of education is completion of graduate certificate or degree def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some graduate certificate or degree." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:28:49Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:28:49Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some graduate degree socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2625,8 +2634,8 @@ name: highest level of education is completion of vocaational education program def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some vocational education program." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:29:28Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:29:28Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some vocational education program socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2636,8 +2645,8 @@ name: highest level of education is completion of kindergarten data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is pre-kindergarten." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates that a person has completed only early childhood education and nothing more. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:47:38Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:47:38Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of kindergarten socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2647,8 +2656,8 @@ name: highest level of education is completion of pre-kindergarten data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is kindergarten." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:48:10Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:48:10Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of pre-kindergarten socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -2660,9 +2669,9 @@ comment: Other dispositions that it can and likely does have as dispositional pa comment: The realization of this disposition by definition realizes the bearer's linguistic competence that is a dispositional part of this disposition. The realization of the linguistic competence would be an occurrent part of the realization of this disposition (and not a temporal part). comment: Whereas linguistic competence may be afforded to non-human agents, literacy is nearly always considered in the context of human beings. is_a: BFO:0000016 -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Xi Yang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yonghui Wu" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Xi Yang" xsd:string +property_value: dc:contributor "Yonghui Wu" xsd:string property_value: IAO:0000111 "language literacy competence" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "human literacy" xsd:string @@ -2673,9 +2682,9 @@ id: OMRSE:00002059 name: caregiver role def: "A human social role that, if realized, is realized in providing assistance in the activities of daily living of another human being who possesses reduced capability to complete some of these activities alone." [] is_a: OMRSE:00000001 ! human social role -property_value: http://purl.org/dc/elements/1.1/contributor "John Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "John Judkins" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2684,9 +2693,9 @@ name: family relationship def: "A relational quality that inheres within two or more persons related as members of a domestic group, or a number of domestic groups linked through descent from a common ancestor, marriage, or adoption." [] comment: We are also intending on including other family arrangements. This is something we are working on. is_a: BFO:0000145 -property_value: http://purl.org/dc/elements/1.1/contributor "John Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "John Judkins" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000119 "http://purl.obolibrary.org/obo/ERO_0002033" xsd:string [Term] @@ -2695,7 +2704,7 @@ name: monetary personal income data item def: "A data item that is about the sum of earnings for some person(s) from various forms of payment or profits." [] comment: We use the phrase ‘some person’ in the definition because this class can be about an individual's or a household's earnings. Similarly, we use 'personal income' in the label because the term is typically restricted to individuals and households. This class is also restricted to being about monetary forms of income. is_a: IAO:0000027 -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string property_value: IAO:0000112 "Examples of monetary forms of payment include: wages, salary, or tips; interest generated by capital; dividends earned; lottery, game, or contest monetary winnings; alimony; royalties; trusts; pensions; receipt of rental payments; unemployment payments; social security payments; worker's compensation; social security payments; or profit from entrepreneurial activities." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -2707,9 +2716,9 @@ comment: Instances include any process that brings it about that some specifical comment: Instances include, but are not limited to, processes that bring about cognitive concretizations. is_a: BFO:0000015 relationship: RO:0000057 BFO:0000040 -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "Taking notes on a meeting is an example in which the concretization relation is newly established, since the SDCs that concretize the GDCs come into existence as the notes are written. In contrast, using slides prepared by someone else in order to convey information during a presentation is a case of using a concretization in which the performer neither brings the concretizing SDCs into existence nor is responsible for their standing in the concretization relation to the relevant GDCs. A nonlinguistic example is drawing the logo of one’s favorite brand, in which one creates a pattern that concretizes a GDC that is also concretized by patterns on products of the brand." xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string @@ -2718,9 +2727,9 @@ id: OMRSE:00002063 name: linguistic concretization-utilization process def: "A concretization-utilization process in which the utilized specifically dependent continuant concretizes the generically dependent through use of some language." [] is_a: OMRSE:00002062 ! concretization-utilization process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -2731,9 +2740,9 @@ comment: The interpretation need not be accurate. It may even be the case that t is_a: BFO:0000015 relationship: RO:0000057 BFO:0000020 relationship: RO:0000057 BFO:0000040 -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "For example, reading a text message that says, “It is raining outside,” and inferring that the words on the screen are meant to convey information about the weather. The pattern on the screen that corresponds to the words is the SDC, and the ICE about the rain is the GDC. Or, hearing your spouse say, “Can you come to the kitchen?” and then knowing that your spouse wants you to come to the kitchen. You have interpreted the patterns of the sound as concretizing a GDC about what your spouse wants. Or, seeing a drawing of a basketball player and inferring—perhaps incorrectly—that it is of Michael Jordan." xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string @@ -2742,9 +2751,9 @@ id: OMRSE:00002065 name: linguistic concretization-interpretation process def: "A concretization-interpretation process in which the specifically dependent continuant is inferred to concretize the generically dependent continuant in a way that makes use of some language." [] is_a: OMRSE:00002064 ! concretization-interpretation process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -2754,9 +2763,9 @@ def: "A disposition that inheres in some material entity and is such that that, comment: When realized in a concretization-utilization process, the only relevant concretization may in some cases be a cognitive one, but that suffices to realize a linguistic competence. For example, suppose one begins to write a letter, planning out the words ahead of time, but is interrupted before beginning to write and never resumes. During the process of planning out the words and what one intends to communicate, one is already concretizing words cognitively, as well as considering which combinations of words one can use to concretize additional generically dependent continuants. In doing so, one performs processes that realize one's linguistic competence, without producing any concretizations other than those cognitive ones. is_a: BFO:0000016 relationship: RO:0000052 BFO:0000040 -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -2768,9 +2777,9 @@ comment: The interpretation need not correspond exactly to what was intended by comment: The term 'participant' in the definition need not refer to a human agent. is_a: BFO:0000015 relationship: RO:0000057 BFO:0000040 -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -2779,9 +2788,9 @@ name: language def: "A disposition that (i) is an aggregate of linguistic competences, considered as forming a distinct group on the basis of perceived common characteristics, such as mutual intelligibility among their bearers, in addition to historical or cultural factors; (ii) if realized, is realized in any and all realizations of those linguistic competences; and (iii) inheres in a linguistic community." [] is_a: BFO:0000016 relationship: RO:0002351 OMRSE:00002066 ! linguistic competence -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] @@ -2789,9 +2798,9 @@ id: OMRSE:00002070 name: disclosure of preferred language def: "A communication in which some participant states a preference for some communicative process to be in a certain language, via some concretization of some preferred language information content entity." [] is_a: OMRSE:00002068 ! communication -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -2801,9 +2810,9 @@ def: "An information content entity that is about some person and some language, is_a: IAO:0000030 relationship: IAO:0000136 BFO:0000040 relationship: IAO:0000136 OMRSE:00002069 ! language -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string [Term] @@ -2814,7 +2823,7 @@ comment: Previous definition: A role played by an entity in human social process is_a: BFO:0000023 relationship: RO:0000052 BFO:0000040 relationship: RO:0000052 BFO:0000040 {all_only="true"} -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -2823,12 +2832,12 @@ is_a: OMRSE:00000022 ! aggregate of objectual organisms [Typedef] id: OMIABIS:0000008 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] id: OMIABIS:0000009 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -2842,7 +2851,7 @@ is_obsolete: true id: OMRSE:00000021 name: obsolete is-component-of-aggregate comment: At the instance level, this relation is the named inverse of is-aggregate-of.\n\nAt the type level, however, not so.\n\nWe expect BFO 2.0 to have this relation as well, and we will obsolete this property and declare it equivalent to BFO's version when BFO 2.0 comes out. -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -2869,14 +2878,14 @@ name: provides service id: OMRSE:00000247 name: is abuse of def: "Relation between an abusive behavior and one upon whom it is inflicted." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Typedef] id: OMRSE:00000248 name: has aggressor def: "Relation between an abusive behavior and one who inflicts it upon someone or something else." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Typedef] @@ -2890,8 +2899,8 @@ range: BFO:0000040 id: OMRSE:00000263 name: demarcates def: "Relation in which a categorization scheme stands to each category into which it partitions things." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: OMRSE:00000262 ! categorization scheme is_a: IAO:0000136 @@ -2901,8 +2910,8 @@ inverse_of: OMRSE:00000264 ! demarcated by id: OMRSE:00000264 name: demarcated by def: "Relation in which a category stands to the categorization scheme that demarcates it as a category." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string range: OMRSE:00000262 ! categorization scheme @@ -2910,8 +2919,8 @@ range: OMRSE:00000262 ! categorization scheme id: OMRSE:00000272 name: has primary data subject def: "Relation in which a data item stands to the person it is both about and primarily associated with." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: IAO:0000030 range: NCBITaxon:9606 @@ -2922,8 +2931,8 @@ inverse_of: OMRSE:00000273 ! primary data subject of id: OMRSE:00000273 name: primary data subject of def: "The inverse of has primary data subject." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: NCBITaxon:9606 range: IAO:0000030 @@ -2932,8 +2941,8 @@ range: IAO:0000030 id: OMRSE:00000275 name: has reporter def: "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: OMRSE:00000274 ! personal data disclosure range: NCBITaxon:9606 @@ -2944,8 +2953,8 @@ inverse_of: OMRSE:00000276 ! reporter of id: OMRSE:00000276 name: reporter of def: "The inverse of has reporter." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: NCBITaxon:9606 range: OMRSE:00000274 ! personal data disclosure @@ -2953,5 +2962,5 @@ is_a: RO:0000056 [Typedef] id: RO:0002217 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty diff --git a/omrse-base.owl b/omrse-base.owl index 5ddf846..f0a68b6 100644 --- a/omrse-base.owl +++ b/omrse-base.owl @@ -11,9 +11,10 @@ xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" xmlns:terms="http://purl.org/dc/terms/" xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#" - xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> + xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" + xmlns:language-individuals="http://purl.obolibrary.org/obo/omrse/language-individuals/"> - + Barry Smith Chris Stoeckert Daniel Welch @@ -36,7 +37,7 @@ https://creativecommons.org/licenses/by/4.0/ This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's "meaningful use" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt - 2024-03-22 + 2024-08-09 @@ -170,6 +171,12 @@ + + + + + + @@ -271,6 +278,12 @@ + + + + + + @@ -774,14 +787,6 @@ We expect BFO 2.0 to have this relation as well, and we will obsolete this prope - - - - - - - - @@ -2126,7 +2131,7 @@ Note: this definition was taken over from "geopolitical organization". - + @@ -2167,7 +2172,7 @@ Note: this definition was taken over from "geopolitical organization". - + @@ -2962,7 +2967,7 @@ last accessed June 30, 2015 - + @@ -5812,16 +5817,6 @@ Somehow involves skilled nursing encounters - non-binary gender identity datum - A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender. - Paul Fabry - William Hogan - non-binary gender identity information content entity - Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.) - -Examples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) - obsolete non-binary gender identity datum - true @@ -6956,26 +6951,5363 @@ It indicates that a person has completed only early childhood education and noth - - imported from - - - true - - - true - - + + + + + + + + + + + + + + + + Аҧсуа бызшәа + Аҧсшәа + ab + abk + abk + Abkhazian + + + + + + + + + بهسا اچيه + ace + ace + Achinese + + + + + + + + + Lwo + ach + ach + Acoli + + + + + + + + + Dangme + ada + ada + Adangme + + + + + + + + + Adygei + Адыгабзэ + Кӏахыбзэ + ady + ady + Adyghe + + + + + + + + + El-Afrihili + afh + afh + Afrihili + + + + + + + + + Afrikaans + af + afr + afr + Afrikaans + + + + + + + + + アイヌ・イタㇰ + ain + ain + Ainu + + + + + + + + + Akan + ak + aka + aka 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identity datum stating that a person's subjective sense of gender is non-binary.) + +Examples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) + Afar + obsolete non-binary gender identity datum true - + diff --git a/omrse-full.json b/omrse-full.json index b2e867e..bafc23b 100644 --- a/omrse-full.json +++ b/omrse-full.json @@ -67,1429 +67,1057 @@ "val" : "This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's \"meaningful use\" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-03-22" + "val" : "2024-08-09" } ], - "version" : "http://purl.obolibrary.org/obo/omrse/releases/2024-03-22/omrse-full.json" + "version" : "http://purl.obolibrary.org/obo/omrse/releases/2024-08-09/omrse-full.json" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/IAO_0000002", - "lbl" : "example to be eventually removed", - "type" : "INDIVIDUAL", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "example to be eventually removed" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000078", - "lbl" : "curation status specification", + "id" : "http://purl.obolibary.org/obo/IAO_0021001", + "lbl" : "obsolete_deontic document act", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." + "val" : "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "curation status specification" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my filling in an immigration form, a judge's signing and stamping a court order" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Bill Bug" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBI_0000266" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000103", - "lbl" : "failed exploratory term", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000008", + "lbl" : "software development", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The term was used in an attempt to structure part of the ontology but in retrospect failed to do a good job" + "val" : "A planned process that has specified output a software product and that involves the creation of source code." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "failed exploratory term" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Software_development" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A planned process resulting in a software product involving the creation of source code." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000225", - "lbl" : "obsolescence reason specification", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000032", + "lbl" : "count", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." + "val" : "A measurement datum that is the output of counting." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obsolescence reason specification" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A measurement datum that is the output of counting." } ] } }, { - "id" : "http://www.w3.org/2002/07/owl#Thing" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000120", - "lbl" : "metadata complete", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000033", + "lbl" : "counting", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Class has all its metadata, but is either not guaranteed to be in its final location in the asserted IS_A hierarchy or refers to another class that is not complete." + "val" : "The planned process of finding the number of elements in a finite set of objects." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "metadata complete" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Counting" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "The planned process of finding the number of elements in a finite set of objects." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000121", - "lbl" : "organizational term", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000480", + "lbl" : "geographical movement of organism", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Term created to ease viewing/sort terms for development purpose, and will not be included in a release" + "val" : "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "organizational term" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000122", - "lbl" : "ready for release", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000522", + "lbl" : "source code repository", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Class has undergone final review, is ready for use, and will be included in the next release. Any class lacking \"ready_for_release\" should be considered likely to change place in hierarchy, have its definition refined, or be obsoleted in the next release. Those classes deemed \"ready_for_release\" will also derived from a chain of ancestor classes that are also \"ready_for_release.\"" + "val" : "A document that comprises at least one source code module and provenance data about who contributed the set of files making up the module(s), and optionally comprises also multiple versions of files with detailed change history about who committed files and when, a license for the software, readme files, documentation, executables, etc." }, + "comments" : [ "Refers to the stuff that lives on GitHub, not to GitHub or the git software on which it is based" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ready for release" + "val" : "software source code version control repository" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000123", - "lbl" : "metadata incomplete", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000524", + "lbl" : "compiling software", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors." + "val" : "A planned process that converts human-written or curated software into a machine-executable or interpretable set of instructions." }, + "comments" : [ "It's compiling \"software\" (scare quotes) and not \"source code\" because you can compile Java bytecode to machine code, and Java bytecode is not technically \"source code\". Compiling source code would be a subclass of this class (as would compiling Java bytecode, etc.).", "Source code can be automatically generated to some extent, but we're assuming humans still curate it minimally. Also, in the case of Java and its JVM, it's machine interpretable instructions, not directly executable. Ditto for other languages with intermediate form like Java byte code." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "metadata incomplete" + "val" : "process of compiling software" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000124", - "lbl" : "uncurated", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000532", + "lbl" : "human travel", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Nothing done yet beyond assigning a unique class ID and proposing a preferred term." + "val" : "A geographical migration of an organism belonging to the species Homo sapiens." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "uncurated" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000125", - "lbl" : "pending final vetting", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000796", + "lbl" : "dataset creating", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "All definitions, placement in the asserted IS_A hierarchy and required minimal metadata are complete. The class is awaiting a final review by someone other than the term editor." + "val" : "A planned process that has a data set as its specified output." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "pending final vetting" + "val" : "creating a data set" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000226", - "lbl" : "placeholder removed", - "type" : "INDIVIDUAL", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "placeholder removed" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data set creation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "dataset creation" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000227", - "lbl" : "terms merged", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000001", + "lbl" : "entity", + "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "terms merged" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "Entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Julius Caesar" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Verdi’s Requiem" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the Second World War" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "your body mass index" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "An editor note should explain what were the merged terms and the reason for the merge." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000228", - "lbl" : "term imported", - "type" : "INDIVIDUAL", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "term imported" + "val" : "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This is to be used when the original term has been replaced by a term imported from an other ontology. An editor note should indicate what is the URI of the new term to use." + "val" : "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000229", - "lbl" : "term split", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000002", + "lbl" : "continuant", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "term split" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "continuant" + }, { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "Continuant" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This is to be used when a term has been split in two or more new terms. An editor note should indicate the reason for the split and indicate the URIs of the new terms created." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000410", - "lbl" : "universal", - "type" : "INDIVIDUAL", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "universal" + "val" : "BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Hard to give a definition for. Intuitively a \"natural kind\" rather than a collection of any old things, which a class is able to be, formally. At the meta level, universals are defined as positives, are disjoint with their siblings, have single asserted parents." + "val" : "Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "A Formal Theory of Substances, Qualities, and Universals, http://ontology.buffalo.edu/bfo/SQU.pdf" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000409", - "lbl" : "denotator type", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A denotator type indicates how a term should be interpreted from an ontological perspective." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "denotator type" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are \"natural kinds\" and the latter arbitrary collections of entities." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Barry Smith, Werner Ceusters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] " + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000420", - "lbl" : "defined class", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000003", + "lbl" : "occurrent", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A defined class is a class that is defined by a set of logically necessary and sufficient conditions but is not a universal" + "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "defined class" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "occurrent" + }, { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "Occurrent" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "\"definitions\", in some readings, always are given by necessary and sufficient conditions. So one must be careful (and this is difficult sometimes) to distinguish between defined classes and universal." + "val" : "BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000421", - "lbl" : "named class expression", - "type" : "INDIVIDUAL", - "meta" : { - "definition" : { - "val" : "A named class expression is a logical expression that is given a name. The name can be used in place of the expression." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "named class expression" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "named class expressions are used in order to have more concise logical definition but their extensions may not be interesting classes on their own. In languages such as OWL, with no provisions for macros, these show up as actuall classes. Tools may with to not show them as such, and to replace uses of the macros with their expansions" + "val" : "Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000423", - "lbl" : "to be replaced with external ontology term", - "type" : "INDIVIDUAL", - "meta" : { - "definition" : { - "val" : "Terms with this status should eventually replaced with a term from another ontology." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "to be replaced with external ontology term" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "group:OBI" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000428", - "lbl" : "requires discussion", - "type" : "INDIVIDUAL", - "meta" : { - "definition" : { - "val" : "A term that is metadata complete, has been reviewed, and problems have been identified that require discussion before release. Such a term requires editor note(s) to identify the outstanding issues." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "requires discussion" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "group:OBI" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] " + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMO_0001000", - "lbl" : "out of scope", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000004", + "lbl" : "independent continuant", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The term was added to the ontology on the assumption it was in scope, but it turned out later that it was not." + "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" }, + "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This obsolesence reason should be used conservatively. Typical valid examples are: un-necessary grouping classes in disease ontologies, a phenotype term added on the assumption it was a disease." + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "ic" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "http://orcid.org/0000-0001-5208-3432" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "IndependentContinuant" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/77" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a chair" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "https://orcid.org/0000-0001-5208-3432" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a heart" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a leg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a molecule" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a spatial region" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "an atom" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "an orchestra." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "an organism" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the bottom right portion of a human torso" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the interior of your mouth" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] " + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMO_0001002", - "lbl" : "domain entity does not exist", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000006", + "lbl" : "spatial region", + "type" : "CLASS", "meta" : { - "definition" : { - "val" : "The term was added to the ontology on the assumption it was a valid domain entity, but it turns out the entity does not exist in reality." - }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "s-region" + }, { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "SpatialRegion" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This obsolesence reason should be used conservatively. For example: Obsoleting class that describes a breed of cow based on a record in an existing database, that was later retracted as faulty (breed does not exist). Do not use this term to obsolete a historic concept (that was once valid, but not anymore). " + "val" : "BFO 2 Reference: Spatial regions do not participate in processes." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "http://orcid.org/0000-0002-4142-7153" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/136" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "https://orcid.org/0000-0002-4142-7153" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] " + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibary.org/obo/IAO_0021001", - "lbl" : "obsolete_deontic document act", + "id" : "http://purl.obolibrary.org/obo/BFO_0000008", + "lbl" : "temporal region", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my filling in an immigration form, a judge's signing and stamping a court order" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000008", - "lbl" : "software development", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A planned process that has specified output a software product and that involves the creation of source code." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Software_development" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A planned process resulting in a software product involving the creation of source code." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000032", - "lbl" : "count", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A measurement datum that is the output of counting." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A measurement datum that is the output of counting." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000033", - "lbl" : "counting", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The planned process of finding the number of elements in a finite set of objects." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Counting" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "t-region" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "The planned process of finding the number of elements in a finite set of objects." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000480", - "lbl" : "geographical migration of organism", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "TemporalRegion" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000522", - "lbl" : "source code repository", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A document that comprises at least one source code module and provenance data about who contributed the set of files making up the module(s), and optionally comprises also multiple versions of files with detailed change history about who committed files and when, a license for the software, readme files, documentation, executables, etc." - }, - "comments" : [ "Refers to the stuff that lives on GitHub, not to GitHub or the git software on which it is based" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "software source code version control repository" + "val" : "A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000524", - "lbl" : "compiling software", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A planned process that converts human-written or curated software into a machine-executable or interpretable set of instructions." - }, - "comments" : [ "It's compiling \"software\" (scare quotes) and not \"source code\" because you can compile Java bytecode to machine code, and Java bytecode is not technically \"source code\". Compiling source code would be a subclass of this class (as would compiling Java bytecode, etc.).", "Source code can be automatically generated to some extent, but we're assuming humans still curate it minimally. Also, in the case of Java and its JVM, it's machine interpretable instructions, not directly executable. Ditto for other languages with intermediate form like Java byte code." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "process of compiling software" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000532", - "lbl" : "human travel", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A geographical migration of an organism belonging to the species Homo sapiens." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000796", - "lbl" : "dataset creating", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A planned process that has a data set as its specified output." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "creating a data set" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002] " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001] " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data set creation" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001] " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "dataset creation" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000001", - "lbl" : "entity", + "id" : "http://purl.obolibrary.org/obo/BFO_0000009", + "lbl" : "two-dimensional spatial region", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "entity" + "val" : "2d-s-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Julius Caesar" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Verdi’s Requiem" + "val" : "TwoDimensionalSpatialRegion" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the Second World War" + "val" : "an infinitely thin plane in space." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "your body mass index" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" + "val" : "the surface of a sphere-shaped part of space" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" + "val" : "A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", + "id" : "http://purl.obolibrary.org/obo/BFO_0000011", + "lbl" : "spatiotemporal region", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "continuant" + "val" : "st-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Continuant" + "val" : "SpatiotemporalRegion" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the spatiotemporal region occupied by a human life" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the spatiotemporal region occupied by a process of cellular meiosis." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the spatiotemporal region occupied by the development of a cancer tumor" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])" + "val" : "A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])" + "val" : "All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])" + "val" : "Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])" + "val" : "Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every spatiotemporal region occupies_spatiotemporal_region itself." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] " + "val" : "(forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] " + "val" : "(forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] " + "val" : "(forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] " + "val" : "(forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", + "id" : "http://purl.obolibrary.org/obo/BFO_0000015", + "lbl" : "process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." + "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" }, + "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "occurrent" + "val" : "process" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Occurrent" + "val" : "Process" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a process of cell-division, \\ a beating of the heart" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a process of meiosis" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a process of sleeping" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the course of a disease" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the flight of a bird" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the life of an organism" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "your process of aging." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] " + "val" : "(iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", + "id" : "http://purl.obolibrary.org/obo/BFO_0000016", + "lbl" : "disposition", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "ic" + "val" : "disposition" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "IndependentContinuant" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a chair" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a heart" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a leg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a molecule" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a spatial region" + "val" : "Disposition" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an atom" + "val" : "an atom of element X has the disposition to decay to an atom of element Y" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an orchestra." + "val" : "certain people have a predisposition to colon cancer" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an organism" + "val" : "children are innately disposed to categorize objects in certain ways." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the bottom right portion of a human torso" + "val" : "the cell wall is disposed to filter chemicals in endocytosis and exocytosis" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the interior of your mouth" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] " + "val" : "If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] " + "val" : "(forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] " + "val" : "(forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000006", - "lbl" : "spatial region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000017", + "lbl" : "realizable entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "s-region" + "val" : "realizable" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "SpatialRegion" + "val" : "RealizableEntity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Spatial regions do not participate in processes." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the disposition of this piece of metal to conduct electricity." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the disposition of your blood to coagulate" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the function of your reproductive organs" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the role of being a doctor" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the role of this boundary to delineate where Utah and Colorado meet" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])" + "val" : "To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])" + "val" : "All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] " + "val" : "(forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] " + "val" : "(forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000008", - "lbl" : "temporal region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000018", + "lbl" : "zero-dimensional spatial region", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "t-region" + "val" : "0d-s-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "TemporalRegion" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional" + "val" : "ZeroDimensionalSpatialRegion" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002] " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001] " + "val" : "A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001] " + "val" : "(forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000009", - "lbl" : "two-dimensional spatial region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000019", + "lbl" : "quality", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "2d-s-region" + "val" : "quality" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "TwoDimensionalSpatialRegion" + "val" : "Quality" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an infinitely thin plane in space." + "val" : "the ambient temperature of this portion of air" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the surface of a sphere-shaped part of space" + "val" : "the color of a tomato" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the length of the circumference of your waist" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the mass of this piece of gold." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the shape of your nose" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the shape of your nostril" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001])" + "val" : "a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001] " + "val" : "(forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000011", - "lbl" : "spatiotemporal region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000020", + "lbl" : "specifically dependent continuant", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" + }, + "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "st-region" + "val" : "sdc" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "SpatiotemporalRegion" + "val" : "SpecificallyDependentContinuant" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the spatiotemporal region occupied by a human life" + "val" : "Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the spatiotemporal region occupied by a process of cellular meiosis." + "val" : "of one-sided specifically dependent continuants: the mass of this tomato" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the spatiotemporal region occupied by the development of a cancer tumor" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001])" + "val" : "of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the disposition of this fish to decay" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the function of this heart: to pump blood" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the mutual dependence of proton donors and acceptors in chemical reactions [79" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every spatiotemporal region occupies_spatiotemporal_region itself." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the pink color of a medium rare piece of grilled filet mignon at its center" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the role of being a doctor" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the shape of this hole." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the smell of this portion of mozzarella" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001] " + "val" : "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/OBOFoundry/COB/issues/65" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/oborel/obo-relations/pull/284" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", + "id" : "http://purl.obolibrary.org/obo/BFO_0000023", + "lbl" : "role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" + "val" : "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "process" + "val" : "role" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Process" + "val" : "Role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a process of cell-division, \\ a beating of the heart" + "val" : "John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a process of meiosis" + "val" : "the priest role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a process of sleeping" + "val" : "the role of a boundary to demarcate two neighboring administrative territories" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the course of a disease" + "val" : "the role of a building in serving as a military target" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the flight of a bird" + "val" : "the role of a stone in marking a property boundary" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the life of an organism" + "val" : "the role of subject in a clinical trial" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "your process of aging." + "val" : "the student role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)" + "val" : "BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] " + "val" : "(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000016", - "lbl" : "disposition", + "id" : "http://purl.obolibrary.org/obo/BFO_0000024", + "lbl" : "fiat object part", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "disposition" + "val" : "fiat-object-part" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Disposition" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an atom of element X has the disposition to decay to an atom of element Y" + "val" : "FiatObjectPart" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "certain people have a predisposition to colon cancer" + "val" : "or with divisions drawn by cognitive subjects for practical reasons, such as the division of a cake (before slicing) into (what will become) slices (and thus member parts of an object aggregate). However, this does not mean that fiat object parts are dependent for their existence on divisions or delineations effected by cognitive subjects. If, for example, it is correct to conceive geological layers of the Earth as fiat object parts of the Earth, then even though these layers were first delineated in recent times, still existed long before such delineation and what holds of these layers (for example that the oldest layers are also the lowest layers) did not begin to hold because of our acts of delineation.Treatment of material entity in BFOExamples viewed by some as problematic cases for the trichotomy of fiat object part, object, and object aggregate include: a mussel on (and attached to) a rock, a slime mold, a pizza, a cloud, a galaxy, a railway train with engine and multiple carriages, a clonal stand of quaking aspen, a bacterial community (biofilm), a broken femur. Note that, as Aristotle already clearly recognized, such problematic cases – which lie at or near the penumbra of instances defined by the categories in question – need not invalidate these categories. The existence of grey objects does not prove that there are not objects which are black and objects which are white; the existence of mules does not prove that there are not objects which are donkeys and objects which are horses. It does, however, show that the examples in question need to be addressed carefully in order to show how they can be fitted into the proposed scheme, for example by recognizing additional subdivisions [29" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "children are innately disposed to categorize objects in certain ways." + "val" : "the FMA:regional parts of an intact human body." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the cell wall is disposed to filter chemicals in endocytosis and exocytosis" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000017", - "lbl" : "realizable entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "realizable" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "RealizableEntity" + "val" : "the Western hemisphere of the Earth" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the disposition of this piece of metal to conduct electricity." + "val" : "the division of the brain into regions" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the disposition of your blood to coagulate" + "val" : "the division of the planet into hemispheres" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the function of your reproductive organs" + "val" : "the dorsal and ventral surfaces of the body" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of being a doctor" + "val" : "the upper and lower lobes of the left lung" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of this boundary to delineate where Utah and Colorado meet" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: Most examples of fiat object parts are associated with theoretically drawn divisions" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] " + "val" : "b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] " + "val" : "(forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000018", - "lbl" : "zero-dimensional spatial region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000026", + "lbl" : "one-dimensional spatial region", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "0d-s-region" + "val" : "1d-s-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ZeroDimensionalSpatialRegion" + "val" : "OneDimensionalSpatialRegion" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "an edge of a cube-shaped portion of space." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001])" + "val" : "A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001] " + "val" : "(forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000019", - "lbl" : "quality", + "id" : "http://purl.obolibrary.org/obo/BFO_0000027", + "lbl" : "object aggregate", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "quality" + "val" : "object-aggregate" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Quality" + "val" : "ObjectAggregate" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the ambient temperature of this portion of air" + "val" : "a collection of cells in a blood biobank." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the color of a tomato" + "val" : "a swarm of bees is an aggregate of members who are linked together through natural bonds" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the length of the circumference of your waist" + "val" : "a symphony orchestra" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the mass of this piece of gold." + "val" : "an organization is an aggregate whose member parts have roles of specific types (for example in a jazz band, a chess club, a football team)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the shape of your nose" + "val" : "defined by fiat: the aggregate of members of an organization" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the shape of your nostril" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001] " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "sdc" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "SpecificallyDependentContinuant" + "val" : "defined through physical attachment: the aggregate of atoms in a lump of granite" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key" + "val" : "defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "of one-sided specifically dependent continuants: the mass of this tomato" + "val" : "defined via attributive delimitations such as: the patients in this hospital" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates." + "val" : "the aggregate of bearings in a constant velocity axle joint" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the disposition of this fish to decay" + "val" : "the aggregate of blood cells in your body" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the function of this heart: to pump blood" + "val" : "the nitrogen atoms in the atmosphere" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the mutual dependence of proton donors and acceptors in chemical reactions [79" + "val" : "the restaurants in Palo Alto" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction" + "val" : "your collection of Meissen ceramic plates." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the pink color of a medium rare piece of grilled filet mignon at its center" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of being a doctor" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the shape of this hole." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: object aggregates may gain and lose parts while remaining numerically identical (one and the same individual) over time. This holds both for aggregates whose membership is determined naturally (the aggregate of cells in your body) and aggregates determined by fiat (a baseball team, a congressional committee)." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the smell of this portion of mozzarella" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " + "val" : "(forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000023", - "lbl" : "role", + "id" : "http://purl.obolibrary.org/obo/BFO_0000028", + "lbl" : "three-dimensional spatial region", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "role" + "val" : "3d-s-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the priest role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of a boundary to demarcate two neighboring administrative territories" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of a building in serving as a military target" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of a stone in marking a property boundary" + "val" : "ThreeDimensionalSpatialRegion" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of subject in a clinical trial" + "val" : "a cube-shaped region of space" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the student role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives." + "val" : "a sphere-shaped region of space," }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])" + "val" : "A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] " + "val" : "(forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000024", - "lbl" : "fiat object part", + "id" : "http://purl.obolibrary.org/obo/BFO_0000029", + "lbl" : "site", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "fiat-object-part" + "val" : "site" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "FiatObjectPart" + "val" : "Site" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "or with divisions drawn by cognitive subjects for practical reasons, such as the division of a cake (before slicing) into (what will become) slices (and thus member parts of an object aggregate). However, this does not mean that fiat object parts are dependent for their existence on divisions or delineations effected by cognitive subjects. If, for example, it is correct to conceive geological layers of the Earth as fiat object parts of the Earth, then even though these layers were first delineated in recent times, still existed long before such delineation and what holds of these layers (for example that the oldest layers are also the lowest layers) did not begin to hold because of our acts of delineation.Treatment of material entity in BFOExamples viewed by some as problematic cases for the trichotomy of fiat object part, object, and object aggregate include: a mussel on (and attached to) a rock, a slime mold, a pizza, a cloud, a galaxy, a railway train with engine and multiple carriages, a clonal stand of quaking aspen, a bacterial community (biofilm), a broken femur. Note that, as Aristotle already clearly recognized, such problematic cases – which lie at or near the penumbra of instances defined by the categories in question – need not invalidate these categories. The existence of grey objects does not prove that there are not objects which are black and objects which are white; the existence of mules does not prove that there are not objects which are donkeys and objects which are horses. It does, however, show that the examples in question need to be addressed carefully in order to show how they can be fitted into the proposed scheme, for example by recognizing additional subdivisions [29" + "val" : "Manhattan Canyon)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the FMA:regional parts of an intact human body." + "val" : "a hole in the interior of a portion of cheese" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the Western hemisphere of the Earth" + "val" : "a rabbit hole" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the division of the brain into regions" + "val" : "an air traffic control region defined in the airspace above an airport" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the division of the planet into hemispheres" + "val" : "the Grand Canyon" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the dorsal and ventral surfaces of the body" + "val" : "the Piazza San Marco" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the upper and lower lobes of the left lung" + "val" : "the cockpit of an aircraft" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Most examples of fiat object parts are associated with theoretically drawn divisions" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000026", - "lbl" : "one-dimensional spatial region", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "1d-s-region" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "OneDimensionalSpatialRegion" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an edge of a cube-shaped portion of space." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000027", - "lbl" : "object aggregate", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "object-aggregate" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ObjectAggregate" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a collection of cells in a blood biobank." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a swarm of bees is an aggregate of members who are linked together through natural bonds" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a symphony orchestra" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an organization is an aggregate whose member parts have roles of specific types (for example in a jazz band, a chess club, a football team)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "defined by fiat: the aggregate of members of an organization" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "defined through physical attachment: the aggregate of atoms in a lump of granite" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "defined via attributive delimitations such as: the patients in this hospital" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the aggregate of bearings in a constant velocity axle joint" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the aggregate of blood cells in your body" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the nitrogen atoms in the atmosphere" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the restaurants in Palo Alto" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "your collection of Meissen ceramic plates." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: object aggregates may gain and lose parts while remaining numerically identical (one and the same individual) over time. This holds both for aggregates whose membership is determined naturally (the aggregate of cells in your body) and aggregates determined by fiat (a baseball team, a congressional committee)." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000028", - "lbl" : "three-dimensional spatial region", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "3d-s-region" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ThreeDimensionalSpatialRegion" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a cube-shaped region of space" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a sphere-shaped region of space," - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000029", - "lbl" : "site", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "site" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Site" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Manhattan Canyon)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a hole in the interior of a portion of cheese" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a rabbit hole" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an air traffic control region defined in the airspace above an airport" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the Grand Canyon" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the Piazza San Marco" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the cockpit of an aircraft" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the hold of a ship" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the hold of a ship" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", "val" : "the interior of a kangaroo pouch" @@ -1797,313 +1425,56 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000050", - "lbl" : "part of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/BFO_0000140", + "lbl" : "continuant fiat boundary", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "a core relation that holds between a part and its whole" + "val" : "b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_gp2term", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is part of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my brain is part of my body (continuant parthood, two material entities)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "cf-boundary" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this day is part of this year (occurrent parthood)" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "ContinuantFiatBoundary" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other." + "val" : "BFO 2 Reference: In BFO 1.1 the assumption was made that the external surface of a material entity such as a cell could be treated as if it were a boundary in the mathematical sense. The new document propounds the view that when we talk about external surfaces of material objects in this way then we are talking about something fiat. To be dealt with in a future version: fiat boundaries at different levels of granularity.More generally, the focus in discussion of boundaries in BFO 2.0 is now on fiat boundaries, which means: boundaries for which there is no assumption that they coincide with physical discontinuities. The ontology of boundaries becomes more closely allied with the ontology of regions." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" + "val" : "BFO 2 Reference: a continuant fiat boundary is a boundary of some material entity (for example: the plane separating the Northern and Southern hemispheres; the North Pole), or it is a boundary of some immaterial entity (for example of some portion of airspace). Three basic kinds of continuant fiat boundary can be distinguished (together with various combination kinds [29" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "part_of" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000017" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000019" + "val" : "Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions." }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000020" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every continuant fiat boundary is located at some spatial region at every time at which it exists" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000031" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001] " }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000141", + "lbl" : "immaterial entity", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "immaterial" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:PartOf" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "ImmaterialEntity" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:part_of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Part_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000051", - "lbl" : "has part", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a core relation that holds between a whole and its part" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has part" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my body has part my brain (continuant parthood, two material entities)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this year has part this day (occurrent parthood)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)\n\nA continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_part" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000054", - "lbl" : "realized in", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "realized in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this disease is realized in this disease course" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this fragility is realized in this shattering" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigator role is realized in this investigation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is realized by" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "realized_in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/ro.owl" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "[copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000055", - "lbl" : "realizes", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "realizes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this disease course realizes this disease" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigation realizes this investigator role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this shattering realizes this fragility" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000062", - "lbl" : "preceded by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "preceded by" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is preceded by" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "preceded_by" - }, { - "pred" : "http://purl.org/dc/terms/source", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000063", - "lbl" : "precedes", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "precedes" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000066", - "lbl" : "occurs in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" - }, - "comments" : [ "Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant" ], - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "occurs in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "occurs_in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "unfolds in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "unfolds_in" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Occurs_in" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000067", - "lbl" : "contains process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "[copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" - }, - "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "site of" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000140", - "lbl" : "continuant fiat boundary", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "cf-boundary" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ContinuantFiatBoundary" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: In BFO 1.1 the assumption was made that the external surface of a material entity such as a cell could be treated as if it were a boundary in the mathematical sense. The new document propounds the view that when we talk about external surfaces of material objects in this way then we are talking about something fiat. To be dealt with in a future version: fiat boundaries at different levels of granularity.More generally, the focus in discussion of boundaries in BFO 2.0 is now on fiat boundaries, which means: boundaries for which there is no assumption that they coincide with physical discontinuities. The ontology of boundaries becomes more closely allied with the ontology of regions." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: a continuant fiat boundary is a boundary of some material entity (for example: the plane separating the Northern and Southern hemispheres; the North Pole), or it is a boundary of some immaterial entity (for example of some portion of airspace). Three basic kinds of continuant fiat boundary can be distinguished (together with various combination kinds [29" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every continuant fiat boundary is located at some spatial region at every time at which it exists" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "immaterial" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ImmaterialEntity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { @@ -2305,38 +1676,9 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000179", - "lbl" : "BFO OWL specification label", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Really of interest to developers only" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000180", - "lbl" : "BFO CLIF specification label", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Really of interest to developers only" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000182", - "lbl" : "history", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000182", + "lbl" : "history", + "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", @@ -2399,7 +1741,7 @@ "val" : "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.", "xrefs" : [ "GOC:pdt" ] }, - "comments" : [ "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex." ], + "comments" : [ "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.", "This is the same as GO molecular function" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "molecular function" @@ -2425,10 +1767,9 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.", - "xrefs" : [ "GOC:pdt" ] + "val" : "A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective." }, - "comments" : [ "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this." ], + "comments" : [ "A biological process is an evolved process", "Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.", "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological process" @@ -2529,10 +1870,6 @@ "val" : "PERSON: Melanie Courtot" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000004", - "lbl" : "has measurement value", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/IAO_0000005", "lbl" : "objective specification", @@ -3260,10 +2597,6 @@ "val" : "group:OBI" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000039", - "lbl" : "has measurement unit label", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/IAO_0000047", "lbl" : "obsolete2_text based digital entity", @@ -3464,6 +2797,34 @@ "val" : "group:OBI" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000078", + "lbl" : "curation status specification", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "curation status specification" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Bill Bug" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "OBI_0000266" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/IAO_0000079", "lbl" : "density plot", @@ -3915,1142 +3276,1222 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000111", - "lbl" : "editor preferred term", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000128", + "lbl" : "obsolete_identifier", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000121" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "_identifier is a container under information content entity for collecting types of terms to indicate a specific instance or clas of what was used or participated in an investigation. Identifiers are borne by a product or its packaging, and can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots.\n\nNote: everybody agreed that identifier is probably a too general term. We however felt that it would be appropriate to group \"identifiying\" terms under some kind of umbrella. We therefore propose to use _identifier for that purpose. As per OBI conventions, the _ prefixing identifier indicates that this is a helper class and shouldn't be considered as final." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000129", + "lbl" : "version number", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)" + "val" : "A version number is an information content entity which is a sequence of characters borne by part of each of a class of manufactured products or its packaging and indicates its order within a set of other products having the same name." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "editor preferred term" + "val" : "version number" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Note: we feel that at the moment we are happy with a general version number, and that we will subclass as needed in the future. For example, see 7. genome sequence version" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "GROUP: IAO" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000112", - "lbl" : "example of usage", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000131", + "lbl" : "serial number", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold." + "val" : "A serial number is an information content entity which is a unique sequence of characters borne by part of manufactured product or its packaging that is assigned to each individual in some class of products, and so can serve as a way to identify an individual product within the class. Serial numbers can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "example of usage" + "val" : "serial number" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Note: during the call there was some confusion between serial number and model number. We agreed that it would be very helpful for all those terms to have example of usages - please add if you have any :-)" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "GROUP: IAO" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000113", - "lbl" : "in branch", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000132", + "lbl" : "lot number", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "An annotation property indicating which module the terms belong to. This is currently experimental and not implemented yet." + "val" : "A lot number is an information content entity which is an identical sequence of character borne by part of manufactured product or its packaging for each instances of a product class in a discrete batch of an item. Lot numbers are usually assigned to each separate production run of an item. Manufacturing as a lot might be due to a variety of reasons, for example, a single process during which many individuals are made from the same portion of source material. Lot numbers can be encoded in a pattern of other information objects, such as bar codes, numerals, or patterns of dots." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "in branch" + "val" : "lot number" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP:OBI" + "val" : "GROUP: IAO" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBI_0000277" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "batch number" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000114", - "lbl" : "has curation status", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000140", + "lbl" : "setting datum", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A settings datum is a datum that denotes some configuration of an instrument." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has curation status" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Bill Bug" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2/3/2009 Feedback from OBI\n\nThis should be a \"setting specification\". There is a question of whether it is information about a realizable or not.\n\nPro other specification are about realizables.\nCons sometimes specifies a quality which is not a realizable." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Alan grouped these in placeholder for the moment. Name by analogy to measurement datum." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000115", - "lbl" : "textual definition", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000141", + "lbl" : "obsolete_digital quality", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Need to rework digital entity. Digital quality was suggested by Barry." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000144", + "lbl" : "conclusion textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions." + "val" : "A textual entity that expresses the results of reasoning about a problem, for instance as typically found towards the end of scientific papers." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "definition" + "val" : "conclusion textual entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "that fucoidan has a small statistically significant effect on AT3 level but no useful clinical effect as in-vivo anticoagulant, a paraphrase of part of the last paragraph of the discussion section of the paper 'Pilot clinical study to evaluate the anticoagulant activity of fucoidan', by Lowenthal et. al.PMID:19696660" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2012-04-05: \nBarry Smith\n\nThe official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.\n\nCan you fix to something like:\n\nA statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.\n\nAlan Ruttenberg\n\nYour proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. \n\nOn the specifics of the proposed definition:\n\nWe don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. \n\nPersonally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. \n\nWe also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with." + "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2012-04-05: \nBarry Smith\n\nThe official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.\n\nCan you fix to something like:\n\nA statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.\n\nAlan Ruttenberg\n\nYour proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. \n\nOn the specifics of the proposed definition:\n\nWe don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. \n\nPersonally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. \n\nWe also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with. " + "val" : "2009/10/23 Alan Ruttenberg: We need to work on the definition still" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "val" : "Person:Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000116", - "lbl" : "editor note", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000178", + "lbl" : "material information bearer", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology." + "val" : "A material entity in which a concretization of an information content entity inheres." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "editor note" + "val" : "material information bearer" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A page of a paperback novel with writing on it. The paper itself is a material information bearer, the pattern of ink is the information carrier." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a brain" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a hard drive" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "val" : "GROUP: IAO" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000117", - "lbl" : "term editor", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000179", + "lbl" : "histogram", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people" + "val" : "A histogram is a report graph which is a statistical description of a\ndistribution in terms of occurrence frequencies of different event classes." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "term editor" + "val" : "histogram" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "PERSON:James Malone" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000118", - "lbl" : "alternative term", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000180", + "lbl" : "heatmap", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A label for a class or property that can be used to refer to the class or property instead of the preferred rdfs:label. Alternative labels should be used to indicate community- or context-specific labels, abbreviations, shorthand forms and the like." + "val" : "A heatmap is a report graph which is a graphical representation of data\nwhere the values taken by a variable(s) are shown as colors in a\ntwo-dimensional map." }, - "comments" : [ "Consider re-defing to: An alternative name for a class or property which can mean the same thing as the preferred name (semantically equivalent, narrow, broad or related)." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "alternative label" + "val" : "heatmap" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "OBO Operations committee" + "val" : "PERSON:Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "PERSON:James Malone" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000119", - "lbl" : "definition source", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000181", + "lbl" : "Venn diagram", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007" + "val" : "A Venn diagram is a report graph showing all hypothetically possible\nlogical relations between a finite collection of sets." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "definition source" + "val" : "Venn diagram" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "PERSON:Chris Stoeckert" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:James Malone" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Venn_diagram" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000128", - "lbl" : "obsolete_identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0000182", + "lbl" : "obsolete_survival curve", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time." + }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "obsolete_survival curve" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000121" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "_identifier is a container under information content entity for collecting types of terms to indicate a specific instance or clas of what was used or participated in an investigation. Identifiers are borne by a product or its packaging, and can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots.\n\nNote: everybody agreed that identifier is probably a too general term. We however felt that it would be appropriate to group \"identifiying\" terms under some kind of umbrella. We therefore propose to use _identifier for that purpose. As per OBI conventions, the _ prefixing identifier indicates that this is a helper class and shouldn't be considered as final." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Stoeckert" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:James Malone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://www.graphpad.com/www/book/survive.htm" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000129", - "lbl" : "version number", + "id" : "http://purl.obolibrary.org/obo/IAO_0000183", + "lbl" : "dendrogram", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A version number is an information content entity which is a sequence of characters borne by part of each of a class of manufactured products or its packaging and indicates its order within a set of other products having the same name." + "val" : "A dendrogram is a report graph which is a tree diagram\nfrequently used to illustrate the arrangement of the clusters produced by a\nclustering algorithm." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "version number" + "val" : "dendrogram" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Dendrograms are often used in computational biology to\nillustrate the clustering of genes." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Note: we feel that at the moment we are happy with a general version number, and that we will subclass as needed in the future. For example, see 7. genome sequence version" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: IAO" + "val" : "PERSON:James Malone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Dendrogram" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000131", - "lbl" : "serial number", + "id" : "http://purl.obolibrary.org/obo/IAO_0000184", + "lbl" : "scatter plot", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A serial number is an information content entity which is a unique sequence of characters borne by part of manufactured product or its packaging that is assigned to each individual in some class of products, and so can serve as a way to identify an individual product within the class. Serial numbers can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots." + "val" : "A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "serial number" + "val" : "scatter plot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Comparison of gene expression values in two samples can be displayed in a scatter plot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Note: during the call there was some confusion between serial number and model number. We agreed that it would be very helpful for all those terms to have example of usages - please add if you have any :-)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: IAO" + "val" : "PERSON:James Malone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "scattergraph" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Scatterplot" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000132", - "lbl" : "lot number", + "id" : "http://purl.obolibrary.org/obo/IAO_0000185", + "lbl" : "photograph", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A lot number is an information content entity which is an identical sequence of character borne by part of manufactured product or its packaging for each instances of a product class in a discrete batch of an item. Lot numbers are usually assigned to each separate production run of an item. Manufacturing as a lot might be due to a variety of reasons, for example, a single process during which many individuals are made from the same portion of source material. Lot numbers can be encoded in a pattern of other information objects, such as bar codes, numerals, or patterns of dots." + "val" : "A photograph is created by projecting an image onto a photosensitive surface such as a chemically treated plate or film, CCD receptor, etc." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "lot number" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: IAO" + "val" : "PERSON:Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "batch number" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Joanne Luciano" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wiktionary.org/wiki/photograph" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000135", - "lbl" : "obsolete_specifically denotes", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000186", + "lbl" : "photographic print", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "c specifically denotes r =def \nr is a portion of reality\n& c is a particular quality\n& c depends specifically on some independent continuant b \n& b acquired c as the result of the achievement of an objective to enable pointing to r repeatedly. \n\nMarked means there is a changed or additional quality of the bearer - the quality is the information carrier.\n\nCase 1\nMemory trace as mark created when reading some description of some friend. The trace can denote.\n\nCase 2\nPattern of ink arrayed on paper as mark when writing down a friend's name\n\nCase 3\nPattern of magnetic domains on scattered pieces of a hard disk platter as mark when saving a file." + "val" : "A photographic print is a material entity upon which a photograph generically depends." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The process of creation is, for example, writing down on paper the name of a friend by deliberately creating a certain pattern using ink.\n\nHere the ink + paper is the independent continuant and the carrier is the pattern in the ink.\n\nc = pattern in the ink\nb = paper + ink\nr = friend" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "photographic print" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "8/6/2009 Alan Ruttenberg: The suggestions is to deprecate specific and generically denotes in favor of a single denote relationship that corresponds to the generic sense" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" + "val" : "PERSON:Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000136", - "lbl" : "is about", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000225", + "lbl" : "obsolescence reason specification", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A (currently) primitive relation that relates an information artifact to an entity." + "val" : "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This document is about information artifacts and their representations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "obsolescence reason specification" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of \"mentions\" relation. Weaken the is_about relationship to be primitive. \n\nWe will try to build it back up by elaborating the various subproperties that are more precisely defined.\n\nSome currently missing phenomena that should be considered \"about\" are predications - \"The only person who knows the answer is sitting beside me\" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic." + "val" : "The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "person:Alan Ruttenberg" + "val" : "PERSON: Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000140", - "lbl" : "setting datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000300", + "lbl" : "textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A settings datum is a datum that denotes some configuration of an instrument." + "val" : "A textual entity is a part of a manifestation (FRBR sense), a generically dependent continuant whose concretizations are patterns of glyphs intended to be interpreted as words, formulas, etc." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "textual entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Words, sentences, paragraphs, and the written (non-figure) parts of publications are all textual entities" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2/3/2009 Feedback from OBI\n\nThis should be a \"setting specification\". There is a question of whether it is information about a realizable or not.\n\nPro other specification are about realizables.\nCons sometimes specifies a quality which is not a realizable." + "val" : "AR, (IAO call 2009-09-01): a document as a whole is not typically a textual entity, because it has pictures in it - rather there are parts of it that are textual entities. Examples: The title, paragraph 2 sentence 7, etc." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan grouped these in placeholder for the moment. Name by analogy to measurement datum." + "val" : "MC, 2009-09-14 (following IAO call 2009-09-01): textual entities live at the FRBR (http://en.wikipedia.org/wiki/Functional_Requirements_for_Bibliographic_Records) manifestation level. Everything is significant: line break, pdf and html versions of same document are different textual entities." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Lawrence Hunter" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "text" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000141", - "lbl" : "obsolete_digital quality", + "id" : "http://purl.obolibrary.org/obo/IAO_0000301", + "lbl" : "citation", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A textual entity intended to identify a particular publication." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "citation" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Need to rework digital entity. Digital quality was suggested by Barry." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Verspoor, K., Cohen, KB., Hunter, L. Textual characteristics of traditional and Open Access scientific journals are similar, BMC Bioinformatics 2009, 10:183." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Lawrence Hunter" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000142", - "lbl" : "mentions", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000302", + "lbl" : "author identification", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information artifact IA mentions an entity E exactly when it has a component/part that denotes E" + "val" : "A textual entity intended to identify a particular author" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "7/6/2009 Alan Ruttenberg. P4 RC1 munges our GCI so remove it for now: mentions some entity equivalentTo has_part some ('generically denotes' some entity)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "author identification" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "7/6/2009 Alan Ruttenberg: Add this relation following conversation with Jonathan Rees that N&S GCI for is_about was too strong. Really it was simply sufficient. To effect this change we introduce this relation, which is subproperty of is_about, and have previous GCI use this relation \"mentions\" in it's (logical) definition" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "L. Hunter" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jonathan Rees" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person: Alan Ruttenberg" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000143", - "lbl" : "mentioned by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000303", + "lbl" : "institutional identification", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Inverse of the relation 'mentions'" + "val" : "A textual entity intended to identify a particular institution" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "http://orcid.org/0000-0002-8844-9165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "institutional identification" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/250" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "University of Colorado Denver School of Medicine" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2022-01-28T07:20:08Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000144", - "lbl" : "conclusion textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000304", + "lbl" : "caption", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses the results of reasoning about a problem, for instance as typically found towards the end of scientific papers." + "val" : "A textual entity that describes a figure" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "conclusion textual entity" + "val" : "caption" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "that fucoidan has a small statistically significant effect on AT3 level but no useful clinical effect as in-vivo anticoagulant, a paraphrase of part of the last paragraph of the discussion section of the paper 'Pilot clinical study to evaluate the anticoagulant activity of fucoidan', by Lowenthal et. al.PMID:19696660" + "val" : "Figure 1: A system diagram describing the modules of the Hanalyzer. Reading methods (green) take external sources of knowledge (blue) and extract information from them, either by parsing structured data or biomedical language processing to extract information from unstructured data. Reading modules are responsible for tracking the provenance of all knowledge. Reasoning methods (yellow) enrich the knowledge that results from reading by, for example, noting two genes that are annotated to the same ontology term or database entry. All knowledge sources, read or reasoned, are assigned a reliability score, and all are combined using that score into a knowledge network (orange) that represents the integration of all sorts of relationship between a pair of genes and a combined reliability score. A data network (also orange) is created from experimental results to be analyzed. The reporting modules (pink) integrate the data and knowledge networks, producing visualizations that can be queried with the associated drill-down tool." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/10/23 Alan Ruttenberg: We need to work on the definition still" + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000178", - "lbl" : "material information bearer", + "id" : "http://purl.obolibrary.org/obo/IAO_0000305", + "lbl" : "document title", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A material entity in which a concretization of an information content entity inheres." + "val" : "A textual entity that names a document" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "material information bearer" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A page of a paperback novel with writing on it. The paper itself is a material information bearer, the pattern of ink is the information carrier." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a brain" + "val" : "document title" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a hard drive" + "val" : "Textual characteristics of traditional and Open Access scientific journals are similar" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: IAO" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000179", - "lbl" : "histogram", + "id" : "http://purl.obolibrary.org/obo/IAO_0000306", + "lbl" : "table", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A histogram is a report graph which is a statistical description of a\ndistribution in terms of occurrence frequencies of different event classes." + "val" : "A textual entity that contains a two-dimensional arrangement of texts repeated at regular intervals across a spatial range, such that the spatial relationships among the constituent texts expresses propositions" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "histogram" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "table" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "| T F\n--+-----\nT | T F\nF | F F" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000180", - "lbl" : "heatmap", + "id" : "http://purl.obolibrary.org/obo/IAO_0000307", + "lbl" : "table of abbreviations", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A heatmap is a report graph which is a graphical representation of data\nwhere the values taken by a variable(s) are shown as colors in a\ntwo-dimensional map." + "val" : "A table where the constituent texts are abbreviations and their expansions" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "heatmap" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "table of abbreviations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "IAO information artifact ontology\nOBI ontology of biomedical investiations\nGO gene ontology" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000181", - "lbl" : "Venn diagram", + "id" : "http://purl.obolibrary.org/obo/IAO_0000308", + "lbl" : "figure", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A Venn diagram is a report graph showing all hypothetically possible\nlogical relations between a finite collection of sets." + "val" : "An information content entity consisting of a two dimensional arrangement of information content entities such that the arrangement itself is about something." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "Venn diagram" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "figure" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Any picture, diagram or table" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Venn_diagram" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000182", - "lbl" : "obsolete_survival curve", + "id" : "http://purl.obolibrary.org/obo/IAO_0000309", + "lbl" : "diagram", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time." + "val" : "A figure that expresses one or more propositions" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obsolete_survival curve" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "diagram" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A molecular structure ribbon cartoon showing helices, turns and sheets and their relations to each other in space." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://www.graphpad.com/www/book/survive.htm" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "val" : "PERSON: Lawrence Hunter" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000183", - "lbl" : "dendrogram", + "id" : "http://purl.obolibrary.org/obo/IAO_0000310", + "lbl" : "document", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A dendrogram is a report graph which is a tree diagram\nfrequently used to illustrate the arrangement of the clusters produced by a\nclustering algorithm." + "val" : "A collection of information content entities intended to be understood together as a whole" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "dendrogram" + "val" : "document" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Dendrograms are often used in computational biology to\nillustrate the clustering of genes." + "val" : "A journal article, patent application, laboratory notebook, or a book" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Dendrogram" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000184", - "lbl" : "scatter plot", + "id" : "http://purl.obolibrary.org/obo/IAO_0000311", + "lbl" : "publication", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis." + "val" : "A document that is the output of a publishing process." }, + "comments" : [ "Revisit the term in Octorber 2020. Improve the defintion." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "scatter plot" + "val" : "publication" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Comparison of gene expression values in two samples can be displayed in a scatter plot" + "val" : "journal article, newspaper story, book, etc." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "val" : "PERSON: Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "val" : "PERSON: Jie Zheng" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Lawrence Hunter" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "scattergraph" + "val" : "published document" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Scatterplot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/232" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000185", - "lbl" : "photograph", + "id" : "http://purl.obolibrary.org/obo/IAO_0000312", + "lbl" : "publication about an investigation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A photograph is created by projecting an image onto a photosensitive surface such as a chemically treated plate or film, CCD receptor, etc." + "val" : "A publication that is about an investigation" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "publication about an investigation" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Most scientific journal articles" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Joanne Luciano" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Lawrence Hunter" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wiktionary.org/wiki/photograph" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "scientific publication" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000186", - "lbl" : "photographic print", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000313", + "lbl" : "patent", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A photographic print is a material entity upon which a photograph generically depends." + "val" : "A document that has been accepted by a patent authority" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "photographic print" + "val" : "patent" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "US Patent 6,449,603" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000219", - "lbl" : "denotes", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000314", + "lbl" : "document part", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically" + "val" : "An information content entity that is part of a document." }, - "comments" : [ "" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "document part" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A person's name denotes the person. A variable name in a computer program denotes some piece of memory. Lexically equivalent strings can denote different things, for instance \"Alan\" can denote different people. In each case of use, there is a case of the denotation relation obtaining, between \"Alan\" and the person that is being named." + "val" : "An abstract, introduction, method or results section." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009-11-10 Alan Ruttenberg. Old definition said the following to emphasize the generic nature of this relation. We no longer have 'specifically denotes', which would have been primitive, so make this relation primitive.\ng denotes r =def \nr is a portion of reality\nthere is some c that is a concretization of g \nevery c that is a concretization of g specifically denotes r" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Conversations with Barry Smith, Werner Ceusters, Bjoern Peters, Michel Dumontier, Melanie Courtot, James Malone, Bill Hogan" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000220", - "lbl" : "obsolete_materially denotes", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000221", - "lbl" : "is quality measurement of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000315", + "lbl" : "abstract", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "m is a quality measurement of q at t. When q is a quality, there is a measurement process p that has specified output m, a measurement datum, that is about q" + "val" : "A summary of the entire document that is substantially smaller than the document it summarizes. It is about the document it summarizes." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "8/6/2009 Alan Ruttenberg: The strategy is to be rather specific with this relationship. There are other kinds of measurements that are not of qualities, such as those that measure time. We will add these as separate properties for the moment and see about generalizing later" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "abstract" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "From the second IAO workshop [Alan Ruttenberg 8/6/2009: not completely current, though bringing in comparison is probably important]\n\nThis one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it \"measuring\" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail.\n\nWerner suggests a solution based on \"Magnitudes\" a proposal for which we are awaiting details.\n--\nFrom the second IAO workshop, various comments, [commented on by Alan Ruttenberg 8/6/2009]\n\nunit of measure is a quality, e.g. the length of a ruler.\n\n[We decided to hedge on what units of measure are, instead talking about measurement unit labels, which are the information content entities that are about whatever measurement units are. For IAO we need that information entity in any case. See the term measurement unit label]\n\n[Some struggling with the various subflavors of is_about. We subsequently removed the relation represents, and describes until and only when we have a better theory]\n\na represents b means either a denotes b or a describes\n\ndescribe:\na describes b means a is about b and a allows an inference of at least one quality of b\n\nWe have had a long discussion about denotes versus describes." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The profusion of high-throughput instruments and the explosion of new results in the scientific literature, particularly in molecular biomedicine, is both a blessing and a curse to the bench researcher. Even knowledgeable and experienced scientists can benefit from computational tools that help navigate this vast and rapidly evolving terrain. In this paper, we describe a novel computational approach to this challenge, a knowledge-based system that combines reading, reasoning and reporting methods to facilitate analysis of experimental data. Reading methods extract information from external resources, either by parsing structured data or biomedical language processing to extract information from unstructured data, and track knowledge provenance. Reasoning methods enrich the knowledge that results from reading by, for example, noting two genes that are annotated to the same ontology term or database entry. Reasoning is also used to combine all sources into a knowledge network that represents the integration of all sorts of relationships between a pair of genes, and to calculate a combined reliability score. Reporting methods combine the knowledge network with a congruent network constructed from experimental data and visualize the combined network in a tool that facilitates the knowledge-based analysis of that data." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "From the second IAO workshop: An attempt at tieing the quality to the measurement datum more carefully.\n\na is a magnitude means a is a determinate quality particular inhering in some bearer b existing at a time t that can be represented/denoted by an information content entity e that has parts denoting a unit of measure, a number, and b. The unit of measure is an instance of the determinable quality." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "From the second meeting on IAO:\n\nAn attempt at defining assay using Barry's \"reliability\" wording\n\nassay:\nprocess and has_input some material entity\nand has_output some information content entity \nand which is such that instances of this process type reliably generate \noutputs that describes the input." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Lawrence Hunter" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it \"measuring\" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. 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This is also a document part (subsumption there should be inferred)." + "val" : "A planned process in which a CRID registry associates an information content entity with a CRID symbol" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "table of figures" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Articles in Pubmed are reviewed by curators who add MESH terms to the Pubmed records in order to categorize them better and improve the ability to search for them. 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Term was deemed not necessary - no use case for now." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Lawrence Hunter" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000330", - "lbl" : "copyright section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000577", + "lbl" : "centrally registered identifier symbol", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document part that describes legal restrictions on making or distributing copies of the document" + "val" : "A symbol that is part of a CRID and that is sufficient to look up a record from the CRID's registry." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "copyright section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This work is licensed under a Creative Commons Attribution-Share Alike 3.0 United States License." + "val" : "The sentence \"The article has Pubmed ID 12345.\" contains a CRID that has two parts: one part is the CRID symbol, which is '12345'; the other part denotes the CRID registry, which is Pubmed." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Lawrence Hunter" + "val" : "PERSON: Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "CRID symbol" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Original proposal from Bjoern, discussions at IAO calls" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000400", - "lbl" : "cartesian spatial coordinate datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000578", + "lbl" : "centrally registered identifier", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A cartesian spatial coordinate datum is a representation of a point in a spatial region, in which equal changes in the magnitude of a coordinate value denote length qualities with the same magnitude" + "val" : "An information content entity that consists of a CRID symbol and additional information about the CRID registry to which it belongs." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The sentence \"The article has Pubmed ID 12345.\" contains a CRID that has two parts: one part is the CRID symbol, which is '12345'; the other part denotes the CRID registry, which is Pubmed." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009-08-18 Alan Ruttenberg - question to BFO list about whether the BFO sense of the lower dimensional regions is that they are always part of actual space (the three dimensional sort) http://groups.google.com/group/bfo-discuss/browse_thread/thread/9d04e717e39fb617" + "val" : "2014-05-05: In defining this term we take no position on what the CRID denotes. In particular do not assume it denotes a *record* in the CRID registry (since the registry might not have 'records')." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Alan, IAO call 20101124: potentially the CRID denotes the instance it was associated with during creation." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Note, IAO call 20101124: URIs are not always CRID, as not centrally registered. We acknowledge that CRID is a subset of a larger identifier class, but this subset fulfills our current needs. OBI PURLs are CRID as they are registered with OCLC. UPCs (Universal Product Codes from AC Nielsen)are not CRID as they are not centrally registered." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "AR notes: We need to discuss whether it should include site." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Hogan" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://groups.google.com/group/bfo-discuss/browse_thread/thread/9d04e717e39fb617" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "CRID" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Original proposal from Bjoern, discussions at IAO calls" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000401", - "lbl" : "one dimensional cartesian spatial coordinate datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000579", + "lbl" : "centrally registered identifier registry", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A cartesion spatial coordinate datum that uses one value to specify a position along a one dimensional spatial region" + "val" : "A code set of CRID records, each consisting of a CRID symbol and additional information which was recorded in the code set through an assigning a centrally registered identifier process." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "PubMed is a CRID registry. It has a code set of PubMed identifiers associated with journal articles. " + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "Justin Whorton" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "CRID registry" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Original proposal from Bjoern, discussions at IAO calls" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000402", - "lbl" : "two dimensional cartesian spatial coordinate datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000580", + "lbl" : "looking up a centrally registered identifier", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A cartesion spatial coordinate datum that uses two values to specify a position within a two dimensional spatial region" + "val" : "A planned process in which a request to a CRID registry is made to return the information associated with a CRID symbol" }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Going to the PubMed website and entering a PubMed ID in order to retrieve the Pubmed information associated with that ID. " + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "looking up a CRID" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000403", - "lbl" : "three dimensional cartesian spatial coordinate datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000582", + "lbl" : "time stamped measurement datum", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A cartesion spatial coordinate datum that uses three values to specify a position within a three dimensional spatial region" - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000123" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000404", - "lbl" : "has x coordinate value", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000405", - "lbl" : "has z coordinate value", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000406", - "lbl" : "has y coordinate value", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000407", - "lbl" : "has coordinate unit label", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "relating a cartesian spatial coordinate datum to a unit label that together with the values represent a point" ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000408", - "lbl" : "length measurement datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000584", + "lbl" : "time sampled measurement data set", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A scalar measurement datum that is the result of measurement of length quality" + "val" : "A data set that is an aggregate of data recording some measurement at a number of time points. The time series data set is an ordered list of pairs of time measurement data and the corresponding measurement data acquired at that time." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "pmid:20604925 - time-lapse live cell microscopy" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "experimental time series" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000411", - "lbl" : "is denotator type", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000590", + "lbl" : "written name", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates an class defined in an ontology, to the type of it's denotator" + "val" : "A textual entity that denotes a particular in reality." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is denotator type" + "val" : "written name" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "In OWL 2 add AnnotationPropertyRange('is denotator type' 'denotator type')" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "\"Bill Clinton\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "\"The Eiffel Tower\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "\"United States of America\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Bill Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/114" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "The qualifier \"written\" is to set it apart from spoken names. Also, note the restrictions to particulars. We are not naming universals. We could however, be naming, attributive collections which are particulars, so \"All people located in the boundaries of the city of Little Rock, AR on June 18, 2011 at 9:50a CDT\" would be a name." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000412", - "lbl" : "imported from", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000591", + "lbl" : "software method", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "For external terms/classes, the ontology from which the term was imported" + "val" : "A software method (also called subroutine, subprogram, procedure, method, function, or routine) is software designed to execute a specific task." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "imported from" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "PERSON: Melanie Courtot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Michel Dumontier" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000413", - "lbl" : "is duration of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000592", + "lbl" : "software module", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "relates a process to a time-measurement-datum that represents the duration of the process" + "val" : "A software module is software composed of a collection of software methods." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Melanei Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Michel Dumontier" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000414", - "lbl" : "mass measurement datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000593", + "lbl" : "software library", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A scalar measurement datum that is the result of measurement of mass quality" + "val" : "A software library is software composed of a collection of software modules and/or software methods in a form that can be statically or dynamically linked to some software application." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Michel Dumontier" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000415", - "lbl" : "hypothesis textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000594", + "lbl" : "software application", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses an assertion that is intended to be tested." + "val" : "A software application is software that can be directly executed by some processing unit." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "hypothesis textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "that fucoidan has a small statistically significant effect on AT3 level but no useful clinical effect as in-vivo anticoagulant, a paraphrase of part of the last paragraph of the discussion section of the paper 'Pilot clinical study to evaluate the anticoagulant activity of fucoidan', by Lowenthal et. al.PMID:19696660" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Michel Dumontier" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000416", - "lbl" : "time measurement datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000595", + "lbl" : "software script", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A scalar measurement datum that is the result of measuring a temporal interval" + "val" : "A software script is software whose instructions can be executed using a software interpreter." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Michel Dumontier" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000417", - "lbl" : "is quality measured as", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000605", + "lbl" : "abbreviation textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "inverse of the relation of is quality measurement of" + "val" : "A textual entity listing abbreviations and their expansions that are used in a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "abbreviation textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/):\n\nBAC: Bacterial artificial chromosome; CR: Calretinin; GFAP: Glial fibrillary acidic protein; MAP: Microtubule-associated protein; MRI: Magnetic resonance imaging; NSC: Neural stem cell; PDA: Patent ductus arteriosus; PMG: Polymicrogyria; PNH: Periventricular nodular heterotopia; VSD: Ventricular septal defect." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000418", - "lbl" : "is quality specification of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000606", + "lbl" : "abbreviations section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A relation between a data item and a quality of a material entity where the material entity is the specified output of a material transformation which achieves an objective specification that indicates the intended value of the specified quality." + "val" : "A part of a document where abbreviations and their long-forms used within the document are listed." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "abbreviations section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'abbreviations' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Bjoern Peters" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviation and acronyms" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviation list" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviations and acronyms" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviations list" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviations used" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "definitions for abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "list of abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "list of abbreviations used" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "non-standard abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "nonstandard abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "nonstandard abbreviations and acronyms" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000419", - "lbl" : "quality is specified as", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000607", + "lbl" : "author information section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "inverse of the relation of is quality specification of" + "val" : "A part of a document about the authors that provides biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "author information section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'author information' in a typical scientific journal article, e.g. in Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "author information" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "authors’ information" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "biographies" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "contributor information" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000422", - "lbl" : "postal address", + "id" : "http://purl.obolibrary.org/obo/IAO_0000608", + "lbl" : "author information textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that is used as directive to deliver something to a person, or organization" + "val" : "A textual entity expression information about an author of a document. This information may include biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "author information textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2010-05-24 Alan Ruttenberg. Use label for the string representation. See issue https://github.com/information-artifact-ontology/IAO/issues/59" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/):\n\nIT [the author] is the lead paediatrician for ADHD services in East Hertfordshire, UK, where she runs a weekly joint ADHD clinic with the Child and Adolescent psychiatrist and works within an ADHD specialist team. IT also sees children with other neurodisability issues who may have comorbid ADHD, where the presentation may be more complex and challenging to manage. IT has vast experience in managing children with complex ADHD. She has 18 years of experience in paediatrics and also has extensive experience in the use of psychopharmacologic agents in managing children with ADHD." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000424", - "lbl" : "expand expression to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000609", + "lbl" : "author summary section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A macro expansion tag applied to an object property (or possibly a data property) which can be used by a macro-expansion engine to generate more complex expressions from simpler ones" + "val" : "A part of a document, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "expand expression to" + "val" : "author summary section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "ObjectProperty: RO_0002104\nLabel: has plasma membrane part\nAnnotations: IAO_0000424 \"http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"\n" + "val" : "The section labelled 'synopsis' in a typical scientific journal article, e.g. in Pendse et al. BMC Genomics. 2013; 14: 136. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3608171/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "author summary" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "summary" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "synopsis" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000425", - "lbl" : "expand assertion to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000610", + "lbl" : "author summary textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A macro expansion tag applied to an annotation property which can be expanded into a more detailed axiom." + "val" : "A textual entity, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers, e.g as described in the article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "expand assertion to" + "val" : "author summary textual entity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "ObjectProperty: RO???\nLabel: spatially disjoint from\nAnnotations: expand_assertion_to \"DisjointClasses: (http://purl.obolibrary.org/obo/BFO_0000051 some ?X) (http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"\n" + "val" : "From Pendse et al. BMC Genomics. 2013; 14: 136. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3608171/):\n\n\nThe search for genetic risk factors for common human diseases often relies on the use of linkage and association studies to establish correlation between genomic markers and disease risk. These studies require additional functional evaluation of candidate genes, including their possible interaction with diet and environment. The number of candidate genes is typically large and the development of appropriate genetic tools in mammalian systems is slow. By contrast, large-scale genetic screens, using widely available genetic tools, are routinely conducted in the fruit fly Drosophila melanogaster. In this study, we used Drosophila to screen candidate genes identified in human genome-wide scans as associated with risk of metabolic abnormalities such as type 2 diabetes. We show that a number of human candidate genes have fly orthologs that play an important role in Drosophila tolerance to high dietary sucrose. We further explored some of the specific metabolic abnormalities that can result when these genes’ activities are reduced in flies, focusing on a gene we call dHHEX (CG7056), the fly ortholog of human HHEX." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000426", - "lbl" : "first order logic expression", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "first order logic expression" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000427", - "lbl" : "antisymmetric property", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000611", + "lbl" : "availability section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Use boolean value xsd:true to indicate that the property is an antisymmetric property" + "val" : "A part of a document about a resource described in the document, e.g. software, that describes where and/or how that resource can be obtained." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "antisymmetric property" + "val" : "availability section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "part_of antisymmetric property xsd:true" + "val" : "The section labelled 'availability and requirements' in a typical scientific journal article, e.g. Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/)." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "availability" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "availability of data" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data archiving" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data availability" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data availability statement" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data sharing statement" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000429", - "lbl" : "email address", + "id" : "http://purl.obolibrary.org/obo/IAO_0000612", + "lbl" : "availability textual entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A textual entity expressing the location of a resource, e.g. software, or the manner in which a resource can be obtained." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "email address" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "availability textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan Ruttenberg 1/3/2012 - Provisional id, see issue at https://github.com/information-artifact-ontology/IAO/issues/130&thanks=130&ts=1325636583" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/):\n\nProject home page:http://krux.googlecode.com" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Chris Stoeckart" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000442", - "lbl" : "author role", + "id" : "http://purl.obolibrary.org/obo/IAO_0000613", + "lbl" : "case report section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role inhering in a person or organization that is realized when the bearer participates in the work which is the basis of the document, in the writing of the document, and signs it with their name." + "val" : "A part of a document about the medical history of a specific patient as it relates to the topic of the document." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author role" + "val" : "case report section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'case report' in a typical scientific journal article, e.g. in Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "case presentation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "case report" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000443", - "lbl" : "data item extraction from journal article", + "id" : "http://purl.obolibrary.org/obo/IAO_0000614", + "lbl" : "case report textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which journal articles are read or processed and data items are extracted, typically for further analysis or indexing" + "val" : "A textual entity that expresses a detailed account of a portion of the medical history for a specific patient." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "case report textual entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Excerpt from Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/):\n\nThe patient is a 50-year-old man. His medical history was not contributory. At the age of 37 years, he complained of persistent fatigue and dyspnoea even for modest efforts and oedema of lower limbs. The patient was examined at the department of internal medicine of the local hospital, and hospitalised with a diagnosis of dilated cardiomyopathy probably consequence of a myocarditis process. Soon after he was transferred to the cardiologic department of the regional hospital, and pharmacologically treated for heart failure and pulmonary hypertension." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000444", - "lbl" : "publishing process", + "id" : "http://purl.obolibrary.org/obo/IAO_0000615", + "lbl" : "conclusion section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process of making information, such as literature, music, and software etc., available to the public for sale or for free." + "val" : "A part of a document used to summarize the findings discussed in the document. The conclusion section is typically found near the end of a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "conclusion section" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'conclusion' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person: Jie Zheng" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/wiki/Publishing" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "concluding remarks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/232" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "conclusion" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "VEuPathDB" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "conclusions" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "findings" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "summary" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000445", - "lbl" : "document in preparation for publication", + "id" : "http://purl.obolibrary.org/obo/IAO_0000616", + "lbl" : "conflict of interest section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document that is in preparation for submission to be published." + "val" : "A part of a document used to declare any competing interests regarding the authors and/or funding organization for the work described in the document." }, "basicPropertyValues" : [ { - 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"pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Recording the current temperature in a laboratory notebook. 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[Taken from 'Effects of obstructive sleep apnoea risk on postoperative respiratory complications: protocol for a hospital-based registry study' Shin et al. 2016 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4735131/)] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Bjoern Peters" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "wikipedia http://en.wikipedia.org/wiki/Documenting" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000573", - "lbl" : "line graph", + "id" : "http://purl.obolibrary.org/obo/IAO_0000618", + "lbl" : "consent section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A line graph is a type of graph created by connecting a series of data\npoints together with a line." + "val" : "A part of a document about the consent process that was used to enroll patients in a study." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "line graph" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "consent section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'consent' in a typical scientific journal article, e.g. Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "line chart" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI" + "val" : "consent" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Line_chart" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000574", - "lbl" : "assigning a centrally registered identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0000619", + "lbl" : "consent textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which a new CRID is created, associated with an entity, and stored in the CRID registry thereby registering it as being associated with some entity" + "val" : "A textual entity that documents the consenting process used to enroll patients in a study." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A new pubmed ID being created for a journal article, and the associated pubmed record containing information to the journal article. A license plate number registered at the DMV to be belonging to a specific vehicle and owner. Placing a barcode on a product and entering information in a database that this barcode is assigned." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "consent textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2014-05-05: It is the CRID registry that assigns CRIDs, not the users of the registry." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/):\n\nWritten informed consent was obtained from the patient’s parents for publication of this Case report and any accompanying images. A copy of the written consent is available for review by the Editor-in chief of this journal." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Melanie Courtot" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "assigning a CRID" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000575", - "lbl" : "associating information with a centrally registered identifier in its registry", + "id" : "http://purl.obolibrary.org/obo/IAO_0000620", + "lbl" : "ethical approval section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which a CRID registry associates an information content entity with a CRID symbol" + "val" : "A part of a document about the governance body responsible for approving the work discussed in a document on an ethical basis." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Articles in Pubmed are reviewed by curators who add MESH terms to the Pubmed records in order to categorize them better and improve the ability to search for them. " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ethical approval section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'ethical approval' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "associating information with a CRID in the CRID registry" + "val" : "ethical approval" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ethical requirements" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ethics" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ethics statement" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000576", - "lbl" : "obsolete_establishing a CRID registry", + "id" : "http://purl.obolibrary.org/obo/IAO_0000621", + "lbl" : "ethical approval textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a planned process with the objective to establish a system that allows to refer to specific entities of a certain kind and store information about them, by establishing a CRID registry and plan specifications for the process of 1) assigning a CRID and 2) looking up a CRID." + "val" : "A textual entity that documents the ethical approval of some study design." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "MC, 20101124: deprecated following discussion at IAO call 20101124. 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In particular do not assume it denotes a *record* in the CRID registry (since the registry might not have 'records')." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "financial support" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan, IAO call 20101124: potentially the CRID denotes the instance it was associated with during creation." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Note, IAO call 20101124: URIs are not always CRID, as not centrally registered. We acknowledge that CRID is a subset of a larger identifier class, but this subset fulfills our current needs. OBI PURLs are CRID as they are registered with OCLC. UPCs (Universal Product Codes from AC Nielsen)are not CRID as they are not centrally registered." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding information" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding sources" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding statement" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding/support" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "grants" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "CRID" + "val" : "role of the funding source" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Original proposal from Bjoern, discussions at IAO calls" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "source of funding" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "sources of funding" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "study funding" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000579", - "lbl" : "centrally registered identifier registry", + "id" : "http://purl.obolibrary.org/obo/IAO_0000624", + "lbl" : "funding source declaration textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A code set of CRID records, each consisting of a CRID symbol and additional information which was recorded in the code set through an assigning a centrally registered identifier process." + "val" : "A textual entity documenting the source of funding that supported some study." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "PubMed is a CRID registry. It has a code set of PubMed identifiers associated with journal articles. " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "funding souce declaration textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Stephan et al. Accid Anal Prev. 2011 May; 43(3): 1062–1067. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3062852/):\n\nThis study was supported by the International Collaborative Research Grants Scheme with joint grants from the Wellcome Trust UK (GR071587MA) and the Australian NHMRC (268055). The funding sources played no role in study design, data collection, analysis or interpretation, writing the report, or the decision to submit the paper for publication." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "CRID registry" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Original proposal from Bjoern, discussions at IAO calls" + "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000580", - "lbl" : "looking up a centrally registered identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0000625", + "lbl" : "future directions section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which a request to a CRID registry is made to return the information associated with a CRID symbol" + "val" : "A part of a document detailing extensions of the described work that may be implemented at some future point in time." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Going to the PubMed website and entering a PubMed ID in order to retrieve the Pubmed information associated with that ID. " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "future directions section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'future directions' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future challenges" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future considerations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future developments" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "looking up a CRID" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000581", - "lbl" : "has time stamp", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "relates a time stamped measurement datum to the time measurement datum that denotes the time when the measurement was taken" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "future directions" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000582", - "lbl" : "time stamped measurement datum", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000583", - "lbl" : "has measurement datum", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "relates a time stamped measurement datum to the measurement datum that was measured" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future outlook" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future perspectives" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future plans" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future prospects" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future research" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future research directions" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future studies" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future work" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "outlook" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000584", - "lbl" : "time sampled measurement data set", + "id" : "http://purl.obolibrary.org/obo/IAO_0000626", + "lbl" : "future directions textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data set that is an aggregate of data recording some measurement at a number of time points. The time series data set is an ordered list of pairs of time measurement data and the corresponding measurement data acquired at that time." + "val" : "A textual entity expressing ideas regarding future work relevant to work described in a document that could be done." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "pmid:20604925 - time-lapse live cell microscopy" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "future directions textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Excerpt from Wang and Li. Acta Pharmacol Sin. 2016 Jan; 37(1): 25–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4722976/):\n\nIn the future, several questions will need to be resolved regarding the physiological assembly of KCNQ channels and their functional implications in complex neural circuits. First, we still lack sufficiently selective inhibitors and activators among the KCNQ family members." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "experimental time series" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000589", - "lbl" : "OBO foundry unique label", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000627", + "lbl" : "genome announcement section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alternative name for a class or property which is unique across the OBO Foundry." + "val" : "A document part announcing the publication of a novel draft genome sequence." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "OBO foundry unique label" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools ." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "genome announcement section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'genome announcement' in a typical scientific journal article, e.g. in Kim et al. J Bacteriol. 2011 Oct; 193(19): 5537. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3187466/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Mungall" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "genome announcement" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBO Foundry " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000590", - "lbl" : "written name", + "id" : "http://purl.obolibrary.org/obo/IAO_0000628", + "lbl" : "genome announcement textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that denotes a particular in reality." + "val" : "A textual entity that describes the generation and public release of a novel, draft genome sequence." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "written name" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "\"Bill Clinton\"" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "\"The Eiffel Tower\"" + "val" : "genome announcement textual entity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "\"United States of America\"" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "val" : "Excerpt from Kim et al. J Bacteriol. 2011 Oct; 193(19): 5537. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3187466/):\n\nHere we report the genome sequence of Lactobacillus malefermentans KCTC 3548, which we obtained using a whole-genome shotgun strategy (4) with Roche 454 GS (FLX Titanium) pyrosequencing (257,559 reads totaling ∼89.8 Mb; ∼45-fold coverage of the genome) at the Genome Resource Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB)." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/114" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "The qualifier \"written\" is to set it apart from spoken names. Also, note the restrictions to particulars. We are not naming universals. We could however, be naming, attributive collections which are particulars, so \"All people located in the boundaries of the city of Little Rock, AR on June 18, 2011 at 9:50a CDT\" would be a name." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000591", - "lbl" : "software method", + "id" : "http://purl.obolibrary.org/obo/IAO_0000629", + "lbl" : "keyword textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software method (also called subroutine, subprogram, procedure, method, function, or routine) is software designed to execute a specific task." + "val" : "A textual entity listing keywords indicating the major theme(s) of a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "keyword textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From: Fu and Lin. Identification of gene-oriented exon orthology between human and mouse. BMC Genomics. 2012; 13(Suppl 1): S10. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3303729/):\n\nExon orthology; alternative splicing; exon duplication; intron-exon structure." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000592", - "lbl" : "software module", + "id" : "http://purl.obolibrary.org/obo/IAO_0000630", + "lbl" : "keywords section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software module is software composed of a collection of software methods." + "val" : "A part of a document where keywords selected by the author to categorize the major theme(s) of a document are listed." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "keywords section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanei Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'keywords' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "keywords" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000593", - "lbl" : "software library", + "id" : "http://purl.obolibrary.org/obo/IAO_0000631", + "lbl" : "study limitations section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software library is software composed of a collection of software modules and/or software methods in a form that can be statically or dynamically linked to some software application." + "val" : "A part of a document about biases or short comings related to the study design and execution." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "study limitations section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'limitations' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "limitations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "study limitations" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "val" : "Author guidelines published by The Society for Academic Emergency Medicine. (http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1553-2712/homepage/ForAuthors.html)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000594", - "lbl" : "software application", + "id" : "http://purl.obolibrary.org/obo/IAO_0000632", + "lbl" : "study limitations textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software application is software that can be directly executed by some processing unit." + "val" : "A textual entity addressing a shortcoming or bias of a study design or execution." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "study limitations textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Excerpt from the Limitations section of Fermann et al 2015, Acad Emerg Med. 2015 Mar; 22(3): 299–307 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4405051/). \n\nOwing to the nature of a post hoc study, any significant values must be interpreted with caution. In the current analysis, no multiple testing was conducted and p-values remain unadjusted. Moreover, a selection bias arising from the randomized open-label design of the original EINSTEIN PE study cannot be ruled out." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "val" : "Author guidelines published by The Society for Academic Emergency Medicine. (http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1553-2712/homepage/ForAuthors.html)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000595", - "lbl" : "software script", + "id" : "http://purl.obolibrary.org/obo/IAO_0000633", + "lbl" : "materials section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software script is software whose instructions can be executed using a software interpreter." + "val" : "A part of a document about the materials required to reproduce the content of the document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "materials section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'materials' in a typical scientific journal article, e.g. Nguyen et al. BMC Bioinformatics. 2010; 11: 279. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2889936/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "materials" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000596", - "lbl" : "has ID digit count", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000634", + "lbl" : "notes section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates an ontology used to record id policy to the number of digits in the URI. The URI is: the 'has ID prefix\" annotation property value concatenated with an integer in the id range (left padded with \"0\"s to make this many digits)" + "val" : "A part of a document containing typically short notes about the document itself and/or the authors. Often the notes section contains subsections related to funding, competing interests, ethical approval, etc." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ID digit count" + "val" : "notes section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + "val" : "The section labelled 'notes' in a typical scientific journal article, e.g. McLean et al. Br J Gen Pract. 2014 Jul; 64(624): e440–e447 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4073730/):" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000597", - "lbl" : "has ID range allocated to", - "type" : "PROPERTY", + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "notes" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000635", + "lbl" : "patients section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates a datatype that encodes a range of integers to the name of the person or organization who can use those ids constructed in that range to define new terms" + "val" : "A part of a document about the patients that participated in a study." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ID range allocated" + "val" : "patients section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Datatype: idrange:1\nAnnotations: 'has ID range allocated to': \"Chris Mungall\"\nEquivalentTo: xsd:integer[> 2151 , <= 2300]\n" + "val" : "The section labelled 'patients' in a typical scientific journal article, e.g. in Citak et al. Acta Orthop. 2013 Jun; 84(3): 326–327. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715825/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000598", - "lbl" : "has ID policy for", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000636", + "lbl" : "patients textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relating an ontology used to record id policy to the ontology namespace whose policy it manages" + "val" : "A textual entity expressing information regarding the patients used in a study." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ID policy for" + "val" : "patients textual entity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + "val" : "Excerpt from Citak et al. Acta Orthop. 2013 Jun; 84(3): 326–327. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715825/):\n\nBetween January 1996 and February 2012, we treated 4 patients with interprosthetic femoral fractures (3 of them women) (Figure 2) using a custom-made interposition device (Waldemar Link GmbH, Hamburg, Germany) (Figure 1). Mean age was 74 (59–86) years. The fractures occurred mean 18 (13–28) years after primary THA and mean 14 (10–17) years after primary TKA. At the latest follow-up, after mean 8 (0.5–16) years, revision surgery with a total femur replacement was required in 1 case due to aseptic loosening. No other complications requiring revision surgery occurred." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000599", - "lbl" : "has ID prefix", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000637", + "lbl" : "pre-publication history section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates an ontology used to record id policy to a prefix concatenated with an integer in the id range (left padded with \"0\"s to make this many digits) to construct an ID for a term being created." + "val" : "A part of the document about the publication history of a document. This section typically details dates of document submission to a journal and dates of any re-submissions as well as reviewer comments and responses to reviewers by the authors." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ID prefix" + "val" : "pre-publication history section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + "val" : "The section labelled 'pre-publication history' in a typical scientific journal article, e.g. in Xiao et al. BMC Anesthesiol. 2013; 13: 33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016475/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "notice of republication" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "pre-publication history" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000600", - "lbl" : "elucidation", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000638", + "lbl" : "pre-publication history textual entity", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A textual entity that expresses the pre-publication history (submission dates, reviewer comments, etc) for a document, often including a hyperlink to a web page detailing the information." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "elucidation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "person:Alan Ruttenberg" + "val" : "pre-publication history textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Barry Smith" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Xiao et al. BMC Anesthesiol. 2013; 13: 33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016475/):\n\nThe pre-publication history for this paper can be accessed here:\nhttp://www.biomedcentral.com/1471-2253/13/33/prepub" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000601", - "lbl" : "has associated axiom(nl)", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000639", + "lbl" : "related work section", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A part of a document about work in other publications that is relevant to the content of the document." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has associated axiom(nl)" + "val" : "related work section" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'related work' in a typical scientific journal article, e.g. Žitnik and Zupan. Bioinformatics. 2015 Jun 15; 31(12): i230–i239. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542780/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "related literature" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An axiom associated with a term expressed using natural language" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "related work" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000602", - "lbl" : "has associated axiom(fol)", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000640", + "lbl" : "related work textual entity", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A textual entity that discusses work from other publications and expresses their relevancy to the content of a document." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has associated axiom(fol)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "related work textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Excerpt from Žitnik and Zupan. Bioinformatics. 2015 Jun 15; 31(12): i230–i239. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542780/):\n\nOur work presented here is similar in spirit to our recently developed methodology for data fusion via collective matrix factorization (Žitnik and Zupan, 2015).\n\n" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An axiom expressed in first order logic using CLIF syntax" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000603", - "lbl" : "is allocated id range", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000641", + "lbl" : "requirements section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates an ontology IRI to an (inclusive) range of IRIs in an OBO name space. The range is give as, e.g. \"IAO_0020000-IAO_0020999\"" + "val" : "A part of a document about a resource described in the document, e.g. software, that describes the requirements necessary to use the resource, e.g. operating systems, hardware, etc. in the case of a software resource." }, - "comments" : [ "Add as annotation triples in the granting ontology" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is allocated id range" + "val" : "requirements section" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'availability and requirements' in a typical scientific journal article, e.g. Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/)." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "requirements" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000604", - "lbl" : "retired from use as of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000642", + "lbl" : "requirements textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "relates a class of CRID to the date after which further instances should not be made, according to the central authority" + "val" : "A textual entity that expresses the requirements necessary to use a resource, e.g. software." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "retired from use as of" + "val" : "requirements textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "In OWL 2 add AnnotationPropertyRange xsd:dateTimeStamp" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/):\n\n• Operating systems: Platform independent\n\n• Programming language: Matlab, R, Python\n\n• Other requirements: None\n\n• License: GNU GPL v3\n\n• Any restrictions to use by non-academics: None" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000605", - "lbl" : "abbreviation textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000643", + "lbl" : "statistical analysis textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity listing abbreviations and their expansions that are used in a document." + "val" : "A textual entity documenting statistical analysis tools and techniques employed." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "abbreviation textual entity" + "val" : "statistical analysis textual entity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/):\n\nBAC: Bacterial artificial chromosome; CR: Calretinin; GFAP: Glial fibrillary acidic protein; MAP: Microtubule-associated protein; MRI: Magnetic resonance imaging; NSC: Neural stem cell; PDA: Patent ductus arteriosus; PMG: Polymicrogyria; PNH: Periventricular nodular heterotopia; VSD: Ventricular septal defect." + "val" : "From Mondo et al. Cardiovasc J Afr. 2013 Mar; 24(2): 28–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734881/):\n\nData were captured into EPI-DATA (version 3.1), cleaned and then exported to Stata version 10 for analysis. Continuous variables were summarised as mean (± standard deviation) and median (inter-quartile range), and presented in the tables. Categorical data were analysed using frequency and percentages, and results are presented in frequency tables and bar charts. Test of significance (p-value) was determined using the chi-square test. A p-value of less than 0.05 was considered significant." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "PERSON: Bill Baumgartner" @@ -6938,1208 +6466,1057 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000606", - "lbl" : "abbreviations section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000644", + "lbl" : "statistical analysis section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document where abbreviations and their long-forms used within the document are listed." + "val" : "A part of the document used to describe the statistical methodologies employed in the work presented in the document." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "abbreviations section" + "val" : "statistical analysis section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'abbreviations' in a typical scientific journal article." + "val" : "The section labelled 'statistical analysis' in a typical scientific journal article, e.g. Mondo et al. Cardiovasc J Afr. 2013 Mar; 24(2): 28–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734881/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviation and acronyms" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviation list" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviations and acronyms" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviations list" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviations used" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "definitions for abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "list of abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "list of abbreviations used" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "non-standard abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "nonstandard abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "nonstandard abbreviations and acronyms" + "val" : "statistical analysis" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000607", - "lbl" : "author information section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000645", + "lbl" : "tables section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the authors that provides biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document." + "val" : "A part of a document that contains one or more tables." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author information section" + "val" : "tables section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'author information' in a typical scientific journal article, e.g. in Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/)" + "val" : "The section labelled 'tables' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "author information" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "authors’ information" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "biographies" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "contributor information" + "val" : "tables" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000608", - "lbl" : "author information textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000646", + "lbl" : "postal code", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity expression information about an author of a document. This information may include biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document." + "val" : "An identifier that denotes some postal delivery route, some aggregate of postal delivery routes or a geographical region and was created for the purpose of sorting and delivering mail." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author information textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/):\n\nIT [the author] is the lead paediatrician for ADHD services in East Hertfordshire, UK, where she runs a weekly joint ADHD clinic with the Child and Adolescent psychiatrist and works within an ADHD specialist team. IT also sees children with other neurodisability issues who may have comorbid ADHD, where the presentation may be more complex and challenging to manage. IT has vast experience in managing children with complex ADHD. She has 18 years of experience in paediatrics and also has extensive experience in the use of psychopharmacologic agents in managing children with ADHD." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000647", + "lbl" : "Postal delivery route", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A plan specification that if realized, is realized by the delivery of mail to some facility or mailbox within some geographical region." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000648", + "lbl" : "zone improvement plan code", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A postal code that is used in the United States for the purpose of sorting and delivering mail, and that denotes some postal delivery route or some aggregate of postal delivery routes." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ZIP code" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000609", - "lbl" : "author summary section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000650", + "lbl" : "database extract, transform, and load process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers." + "val" : "A planned process which takes as input a database and fills another database by extracting concretizations of information entities from the first, transforming them, and loading the transformed concretizations into the second." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author summary section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'synopsis' in a typical scientific journal article, e.g. in Pendse et al. BMC Genomics. 2013; 14: 136. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3608171/)" + "val" : "database extract, transform, and load process" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Alan Ruttenberg 12/21/16: Maybe this definition instead: A planned process which takes as input a database and copies concretizations from the first, optionally transforms then copies the result to the second" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "author summary" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Alan Ruttenberg 12/21/16: We don't define database in IAO, currently, as the bare word is ambiguous. Reasonable interpretations of the word might be the material entity, an information structure, an information content entity. However this definition commits, at least, to there being some material thing which bear concretizations of information entities and that there are new concretizations created during the process. We consider the ETL process in terms of information entities rather than the concretizations. No committment is made as to whether the specified output." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "summary" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "synopsis" + "val" : "ETL" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)" + "val" : "WEB:https://en.wikipedia.org/wiki/Extract,_transform,_load" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/187" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "https://github.com/information-artifact-ontology/IAO" + }, { + "pred" : "http://xmlns.com/foaf/0.1/page", + "val" : "https://en.wikipedia.org/wiki/Extract,_transform,_load" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000610", - "lbl" : "author summary textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000701", + "lbl" : "descriptive data section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers, e.g as described in the article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)." + "val" : "A document part that lists and defines data variables, describes data characteristics (e.g. missing data information) and any assumptions and simplifications made." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author summary textual entity" + "val" : "descriptive data section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Pendse et al. BMC Genomics. 2013; 14: 136. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3608171/):\n\n\nThe search for genetic risk factors for common human diseases often relies on the use of linkage and association studies to establish correlation between genomic markers and disease risk. These studies require additional functional evaluation of candidate genes, including their possible interaction with diet and environment. The number of candidate genes is typically large and the development of appropriate genetic tools in mammalian systems is slow. By contrast, large-scale genetic screens, using widely available genetic tools, are routinely conducted in the fruit fly Drosophila melanogaster. In this study, we used Drosophila to screen candidate genes identified in human genome-wide scans as associated with risk of metabolic abnormalities such as type 2 diabetes. We show that a number of human candidate genes have fly orthologs that play an important role in Drosophila tolerance to high dietary sucrose. We further explored some of the specific metabolic abnormalities that can result when these genes’ activities are reduced in flies, focusing on a gene we call dHHEX (CG7056), the fly ortholog of human HHEX." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)." + "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000611", - "lbl" : "availability section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000702", + "lbl" : "additional results section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about a resource described in the document, e.g. software, that describes where and/or how that resource can be obtained." + "val" : "A results section that reports analyses other than main results of the study (e.g. subgroups analyses, adjusted analyses, sensitivity analyses, etc.)" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "availability section" + "val" : "additional results section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'availability and requirements' in a typical scientific journal article, e.g. Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/)." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "availability" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "availability of data" + "val" : "PERSON: Chen Yang" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data archiving" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data availability" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/consort/" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data availability statement" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data sharing statement" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/strobe/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000612", - "lbl" : "availability textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000703", + "lbl" : "research participants section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity expressing the location of a resource, e.g. software, or the manner in which a resource can be obtained." + "val" : "A document part that describes human subject(s) that participated in a study (e.g. inclusion & exclusion criteria, recruitment methods, reasons for non-participation, grouping and randomisation, methods of follow-up, etc.)." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "availability textual entity" + "val" : "research participants section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/):\n\nProject home page:http://krux.googlecode.com" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/consort/" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/strobe-nut/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000613", - "lbl" : "case report section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000704", + "lbl" : "measurement methods section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the medical history of a specific patient as it relates to the topic of the document." + "val" : "A methods section that describes details of data assessment methods (data measurement)." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "case report section" + "val" : "measurement methods section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'case report' in a typical scientific journal article, e.g. in Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "case presentation" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "case report" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/strobe/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000614", - "lbl" : "case report textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000705", + "lbl" : "research settings section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses a detailed account of a portion of the medical history for a specific patient." + "val" : "A document part that describes the physical/social/cultural conditions around a research trial." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "case report textual entity" + "val" : "research settings section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Excerpt from Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/):\n\nThe patient is a 50-year-old man. His medical history was not contributory. At the age of 37 years, he complained of persistent fatigue and dyspnoea even for modest efforts and oedema of lower limbs. The patient was examined at the department of internal medicine of the local hospital, and hospitalised with a diagnosis of dilated cardiomyopathy probably consequence of a myocarditis process. Soon after he was transferred to the cardiologic department of the regional hospital, and pharmacologically treated for heart failure and pulmonary hypertension." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.ncbi.nlm.nih.gov/books/NBK262175/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000615", - "lbl" : "conclusion section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000706", + "lbl" : "study bias section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document used to summarize the findings discussed in the document. The conclusion section is typically found near the end of a document." + "val" : "A study limitations section that describes systematic error introduced into sampling or testing by selecting or encouraging one outcome or answer over others." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "conclusion section" + "val" : "study bias section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'conclusion' in a typical scientific journal article." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "concluding remarks" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conclusion" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conclusions" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "findings" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "summary" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "DOI: 10.1097/PRS.0b013e3181de24bc" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000616", - "lbl" : "conflict of interest section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000707", + "lbl" : "graphical abstract", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document used to declare any competing interests regarding the authors and/or funding organization for the work described in the document." + "val" : "An abstract that is pictorial summary of the main findings described in the document." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "conflict of interest section" + "val" : "graphical abstract" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'conflict of interest statement' in a typical scientific journal article." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "authors' disclosures of potential conflicts of interest" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "competing financial interests" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "competing interests" + "val" : "PERSON: Jie Zheng" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conflict of interest" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Tim Beck" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conflict of interest statement" + "val" : "visual abstract" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conflict of interests" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.elsevier.com/authors/journal-authors/graphical-abstract" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conflicts of interest" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration of competing interest" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "Biomedical literature NLP project" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000708", + "lbl" : "ORCID identifier", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A centrally registered identifier that is issued by ORCID (https://orcid.org/) and used to persistantly identify oneself as a human researcher or contributor." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration of competing interests" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "\"You can connect your iD with your professional information — affiliations, grants, publications, peer review, and more. You can use your iD to share your information with other systems, ensuring you get recognition for all your contributions, saving you time and hassle, and reducing the risk of errors.\" [https://orcid.org/]" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration of interest" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This class was originally defined in Apollo_SV (http://purl.obolibrary.org/obo/APOLLO_SV_00000496) but due to it being more in scope of IAO, it was decided to add it to IAO and deprecate its Apollo_SV equivalent. (2022-10-25)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration of interests" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "http://orcid.org/0000-0002-1595-3213" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "disclosure of conflict of interest" + "val" : "ORCID ID" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "disclosure of potential conflicts of interest" + "val" : "ORCiD" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "duality of interest" + "val" : "Open Researcher and Contributor ID" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "statement of interest" + "val" : "Open Researcher and Contributor Identifier" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://orcid.org/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/259" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000617", - "lbl" : "conflict of interest textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020000", + "lbl" : "identifier", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses a situation involving one or more of the authors, or the funding source of a document whereby the authors or funding source stand to potentially gain (typically financially) from the results reported in the document." + "val" : "An information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity." }, + "comments" : [ "Sep 29, 2016: The current definition has been amended from the previous version: \"A proper name is an information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity.\" to more accuratly reflect the necessary and sufficient condition on the class. (MB)" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "conflict of interest statement" + "val" : "identifier" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "SD [an author] is a Merck employee and Merck is the sponsor of this study. [Taken from 'Effects of obstructive sleep apnoea risk on postoperative respiratory complications: protocol for a hospital-based registry study' Shin et al. 2016 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4735131/)] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Justin Whorton" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "proper name" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000618", - "lbl" : "consent section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020001", + "lbl" : "grapheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the consent process that was used to enroll patients in a study." + "val" : "An information content entity that is a fundamental unit in a written language." }, + "comments" : [ "Grapheme is not about anything and hence is likely to not be an information content entity. If a new subclass of GDC for information structure entities is created it should move there." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "consent section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'consent' in a typical scientific journal article, e.g. Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/)" + "val" : "alphabetic letters, Chinese characters, numerical digits, punctuation marks, and the individual symbols of any of the world's writing systems" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Justin Whorton" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "consent" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Grapheme" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000619", - "lbl" : "consent textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020002", + "lbl" : "utterance", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that documents the consenting process used to enroll patients in a study." + "val" : "An utterance is an information content entity that is a complete unit of speech in spoken language. " }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "consent textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/):\n\nWritten informed consent was obtained from the patient’s parents for publication of this Case report and any accompanying images. A copy of the written consent is available for review by the Editor-in chief of this journal." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Wikipedia: http://en.wikipedia.org/wiki/Utterance" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000620", - "lbl" : "ethical approval section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020003", + "lbl" : "mechanical wave quality", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the governance body responsible for approving the work discussed in a document on an ethical basis." + "val" : "An attributive collection of qualities inhering in energy when transported through a medium in a wave." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ethical approval section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'ethical approval' in a typical scientific journal article." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ethical approval" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ethical requirements" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ethics" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ethics statement" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000621", - "lbl" : "ethical approval textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020004", + "lbl" : "writing quality", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that documents the ethical approval of some study design." + "val" : "is a quality that is the concretization of graphemes and inheres in a material object." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ethical approval textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From McLean et al. 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" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0020009", + "lbl" : "oscillating", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Oscillating is a processual that shows repetitive variation, typically in time, of some measured quality about a central value (often a point of equilibrium) or between two or more different states." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "funding souce declaration textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Stephan et al. Accid Anal Prev. 2011 May; 43(3): 1062–1067. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3062852/):\n\nThis study was supported by the International Collaborative Research Grants Scheme with joint grants from the Wellcome Trust UK (GR071587MA) and the Australian NHMRC (268055). 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The multiplicity of code sets is partially due to the different specific purposes of those code sets.", "Many code sets are created for a specific purpose in addition to merely identifying or annotating core ideas of a specified domain.", "The information content entities do not denote each other." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "keywords section" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'keywords' in a typical scientific journal article." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Justin Whorton" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "keywords" + "val" : "code map" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000631", - "lbl" : "study limitations section", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A part of a document about biases or short comings related to the study design and execution." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study limitations section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'limitations' in a typical scientific journal article." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "code system" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "limitations" + "val" : "codeset" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "study limitations" + "val" : "coding system" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Author guidelines published by The Society for Academic Emergency Medicine. 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Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000632", - "lbl" : "study limitations textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020021", + "lbl" : "identity document", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity addressing a shortcoming or bias of a study design or execution." + "val" : "A document that denotes some identity and is concretized by the bearer of some credential role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study limitations textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Excerpt from the Limitations section of Fermann et al 2015, Acad Emerg Med. 2015 Mar; 22(3): 299–307 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4405051/). \n\nOwing to the nature of a post hoc study, any significant values must be interpreted with caution. In the current analysis, no multiple testing was conducted and p-values remain unadjusted. Moreover, a selection bias arising from the randomized open-label design of the original EINSTEIN PE study cannot be ruled out." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Author guidelines published by The Society for Academic Emergency Medicine. (http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1553-2712/homepage/ForAuthors.html)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000633", - "lbl" : "materials section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020022", + "lbl" : "documented identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the materials required to reproduce the content of the document." + "val" : "A documented identity is the aggregate of all data items about an entity. Notice that a documented identity is not itself a document since a document is intended to be understood as a whole and data items about an individual are usually scattered across different documents." }, + "comments" : [ "is an aggregate of ICEs also an ICE? yes\nIs part_of the appropriate relation to use for data items and documented identities?" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "materials section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'materials' in a typical scientific journal article, e.g. Nguyen et al. BMC Bioinformatics. 2010; 11: 279. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2889936/)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "materials" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000634", - "lbl" : "notes section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020023", + "lbl" : "authentication", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document containing typically short notes about the document itself and/or the authors. Often the notes section contains subsections related to funding, competing interests, ethical approval, etc." + "val" : "Authentication is the act of checking or verifying an identity claim (that is either tacit or explicit).\n" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "notes section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'notes' in a typical scientific journal article, e.g. McLean et al. Br J Gen Pract. 2014 Jul; 64(624): e440–e447 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4073730/):" + "val" : " I order a beer and the bartender authenticates my age by looking at my DOB on my driver's license. I sign into my email account, and the system authenticates my permission to read the email by checking the password I enter against my password listed in the database." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "notes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000635", - "lbl" : "patients section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020024", + "lbl" : "credential role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the patients that participated in a study." + "val" : "A role that inheres in a concretization of an identity document and is realized by an authentication process." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "patients section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'patients' in a typical scientific journal article, e.g. in Citak et al. Acta Orthop. 2013 Jun; 84(3): 326–327. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715825/)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000636", - "lbl" : "patients textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020025", + "lbl" : "obsolete obligor role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity expressing information regarding the patients used in a study." + "val" : "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "patients textual entity" + "val" : "obligor role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Excerpt from Citak et al. Acta Orthop. 2013 Jun; 84(3): 326–327. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715825/):\n\nBetween January 1996 and February 2012, we treated 4 patients with interprosthetic femoral fractures (3 of them women) (Figure 2) using a custom-made interposition device (Waldemar Link GmbH, Hamburg, Germany) (Figure 1). Mean age was 74 (59–86) years. The fractures occurred mean 18 (13–28) years after primary THA and mean 14 (10–17) years after primary TKA. At the latest follow-up, after mean 8 (0.5–16) years, revision surgery with a total femur replacement was required in 1 case due to aseptic loosening. No other complications requiring revision surgery occurred." + "val" : "Sam's obligor role realized by him taking Nigel to lunch after promising to do so; Sarah's obligor role realized by paying the purchase price to Layla after signing the contract specifying that she is buying a piece of land from Layla." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "duty holder role (IAO:210016)" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000637", - "lbl" : "pre-publication history section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020026", + "lbl" : "obsolete obligee role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of the document about the publication history of a document. This section typically details dates of document submission to a journal and dates of any re-submissions as well as reviewer comments and responses to reviewers by the authors." + "val" : "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "pre-publication history section" + "val" : "obligee role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'pre-publication history' in a typical scientific journal article, e.g. in Xiao et al. BMC Anesthesiol. 2013; 13: 33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016475/)" + "val" : "Nigel's obligee role realized by Sam taking him out for lunch after Sam so promised; Layla's obligee role realized by receiving the money after signing a contract in which Sarah obtained a piece of land in exchange for a specified sum of money." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "notice of republication" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "pre-publication history" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Sarah Bost" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "claimant role (IAO:0021013)" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000638", - "lbl" : "pre-publication history textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020027", + "lbl" : "owner role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses the pre-publication history (submission dates, reviewer comments, etc) for a document, often including a hyperlink to a web page detailing the information." + "val" : "A role in a human social process that is based on a social act and whose bearer exercises exclusive control over a property, where this control is permitted by one or more deontic roles, which are parts of the owner role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "pre-publication history textual entity" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Xiao et al. BMC Anesthesiol. 2013; 13: 33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016475/):\n\nThe pre-publication history for this paper can be accessed here:\nhttp://www.biomedcentral.com/1471-2253/13/33/prepub" + "val" : "Tammy's owner role with regards to the house on 234 Evergreen Terrace; Walter's owner role with regards to the intellectual property on his movie script" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "OBIB/ICO community" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/d-acts/d-acts/issues/29" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000639", - "lbl" : "related work section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021000", + "lbl" : "obsolete_claim", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0021001", + "lbl" : "deontic document act", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about work in other publications that is relevant to the content of the document." + "val" : "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "related work section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'related work' in a typical scientific journal article, e.g. Žitnik and Zupan. Bioinformatics. 2015 Jun 15; 31(12): i230–i239. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542780/)" + "val" : "my filling in an immigration form, a judge's signing and stamping a court order" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "related literature" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "related work" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000640", - "lbl" : "related work textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0021002", + "lbl" : "obsolete_document act", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that discusses work from other publications and expresses their relevancy to the content of a document." + "val" : "A social act creating, revoking or transferring a socio-legal generically dependent continuant or a role by validating (signing, stamping, publishing) a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "related work textual entity" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Excerpt from Žitnik and Zupan. Bioinformatics. 2015 Jun 15; 31(12): i230–i239. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542780/):\n\nOur work presented here is similar in spirit to our recently developed methodology for data fusion via collective matrix factorization (Žitnik and Zupan, 2015).\n\n" + "val" : "my filling in an immigration form, a judge's signing and stamping a court order" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibary.org/obo/IAO_0021001" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000641", - "lbl" : "requirements section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021003", + "lbl" : "social act", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about a resource described in the document, e.g. software, that describes the requirements necessary to use the resource, e.g. operating systems, hardware, etc. in the case of a software resource." + "val" : "A planned process that is carried out by a conscious being or an organization, and is self-generated, directed towards another conscious being or an aggregate of conscious beings, an organization or an aggregate of organizations, and that is in need of being perceived." }, + "comments" : [ "The phrase \"in need of being perceived\" does not imply that only planned processes that are in fact perceived can be social acts. Reinach clarifies that by exemplifying these matters for commands: \"The command is according to its essence in need of being heard (vernehmungsbedürtig\". It can of course happen that commands are given without being heard. Then they fail to fulfil their purpose. They are like thrown spears which fall to the ground without hitting their target.\" (A. Reinach: The Apriori Foundations of the Civil Law.\" Edited by J. Crosby, Heusenstamm: ontos Verlag, 2012).\nReinach clearly does not imply that a command that does not fulfill its prupose would not be a command.\nThanks to W.R. Hogan for finding the Reinach quote." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "requirements section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'availability and requirements' in a typical scientific journal article, e.g. Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/)." + "val" : "Colonel Klink giving Sergeant Schultz an order, Jake promising Jill to take her to the junior prom" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "requirements" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000642", - "lbl" : "requirements textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0021004", + "lbl" : "obsolete_socio-legal generically dependent continuant", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses the requirements necessary to use a resource, e.g. software." + "val" : "Socio-legal generically dependent continuants are generically dependent continuants that come into existence through social acts and that if they get concretized are concretized as realizable entities." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "requirements textual entity" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/):\n\n• Operating systems: Platform independent\n\n• Programming language: Matlab, R, Python\n\n• Other requirements: None\n\n• License: GNU GPL v3\n\n• Any restrictions to use by non-academics: None" + "val" : "the claim of a piece of land, the obligation to pay rent to the owner of a rental property" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "val" : "Mathias Brochhausen" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000643", - "lbl" : "statistical analysis textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0021005", + "lbl" : "obsolete_deontic declaration", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity documenting statistical analysis tools and techniques employed." + "val" : "A social act that brings about, transfers or revokes a socio-legal generically dependent continuant or brings about or transforms a role. Declarations do not depend on words spoken or written, but sometimes are merely actions, for instance the signing of a document." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "statistical analysis textual entity" + "val" : "deontic declaration" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Mondo et al. Cardiovasc J Afr. 2013 Mar; 24(2): 28–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734881/):\n\nData were captured into EPI-DATA (version 3.1), cleaned and then exported to Stata version 10 for analysis. Continuous variables were summarised as mean (± standard deviation) and median (inter-quartile range), and presented in the tables. Categorical data were analysed using frequency and percentages, and results are presented in frequency tables and bar charts. Test of significance (p-value) was determined using the chi-square test. A p-value of less than 0.05 was considered significant." + "val" : "my consenting verbally to buy a used TV set for $ 500, John Robie's taking of Mrs. Steven's jewels, Jane Doe's revoking of informed consent over the phone, John Doe signing an employment contract." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "declaration" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "status function declaration" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000644", - "lbl" : "statistical analysis section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021006", + "lbl" : "obsolete obligee role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of the document used to describe the statistical methodologies employed in the work presented in the document." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "statistical analysis section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'statistical analysis' in a typical scientific journal article, e.g. Mondo et al. Cardiovasc J Afr. 2013 Mar; 24(2): 28–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734881/)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "statistical analysis" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "val" : "Mathias Brochhausen" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000645", - "lbl" : "tables section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021007", + "lbl" : "document act input document", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document that contains one or more tables." + "val" : "A document that is intended to be the specified input in a document act. It has a plan specification as a part that specifies the intended socio-legal entities that are created through the document (objective specification) and the way in which the document act is to be performed (by signing, by stamping, etc.) (action specification)." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "tables section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'tables' in a typical scientific journal article." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "tables" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000646", - "lbl" : "postal code", + "id" : "http://purl.obolibrary.org/obo/IAO_0021008", + "lbl" : "deontic role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identifier that denotes some postal delivery route, some aggregate of postal delivery routes or a geographical region and was created for the purpose of sorting and delivering mail." + "val" : "A role that inheres in an agent and which is externally grounded in the normative expectations that other agents within a social context have concerning how that agent should behave." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Neil Otte" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000647", - "lbl" : "Postal delivery route", + "id" : "http://purl.obolibrary.org/obo/IAO_0021009", + "lbl" : "deontic declaration", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A plan specification that if realized, is realized by the delivery of mail to some facility or mailbox within some geographical region." + "val" : "A social act that creates or revokes a deontic role." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", @@ -8147,3922 +7524,3475 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000648", - "lbl" : "zone improvement plan code", + "id" : "http://purl.obolibrary.org/obo/IAO_0021010", + "lbl" : "obsolete_obligation", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A postal code that is used in the United States for the purpose of sorting and delivering mail, and that denotes some postal delivery route or some aggregate of postal delivery routes." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ZIP code" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000650", - "lbl" : "database extract, transform, and load process", + "id" : "http://purl.obolibrary.org/obo/IAO_0021013", + "lbl" : "claimant role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process which takes as input a database and fills another database by extracting concretizations of information entities from the first, transforming them, and loading the transformed concretizations into the second." + "val" : "A deontic role that inheres in an agent A, that mutually depends on the existence of a duty holder role borne by agent B, and that specifies B doing or abstaining from C, or providing or surrendering C to A." }, + "comments" : [ "Claimant roles can either be discharged by one act of fulfilling a duty (e.g. when I pay back $5 owed to a friend) or they can remain intact and require ongoing adhering to a duty. \nhttps://plato.stanford.edu/entries/rights/#FormRighHohfAnalSyst discuss the claim of a child to freedom from abuse. That claim remains in existence and the duty to not abuse the child needs to be continuously be acted upon, by a multitude of agents (which all have a duty holder role). This claim is mutually dependent on the duty to abstain from abusing the child." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "database extract, transform, and load process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan Ruttenberg 12/21/16: Maybe this definition instead: A planned process which takes as input a database and copies concretizations from the first, optionally transforms then copies the result to the second" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan Ruttenberg 12/21/16: We don't define database in IAO, currently, as the bare word is ambiguous. Reasonable interpretations of the word might be the material entity, an information structure, an information content entity. However this definition commits, at least, to there being some material thing which bear concretizations of information entities and that there are new concretizations created during the process. We consider the ETL process in terms of information entities rather than the concretizations. No committment is made as to whether the specified output." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "J. Neil Otte" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ETL" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB:https://en.wikipedia.org/wiki/Extract,_transform,_load" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/187" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "https://github.com/information-artifact-ontology/IAO" + "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." }, { - "pred" : "http://xmlns.com/foaf/0.1/page", - "val" : "https://en.wikipedia.org/wiki/Extract,_transform,_load" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://plato.stanford.edu/entries/rights/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000700", - "lbl" : "has ontology root term", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0021014", + "lbl" : "obsolete_declaration executive role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Ontology annotation property. Relates an ontology to a term that is a designated root term of the ontology. Display tools like OLS can use terms annotated with this property as the starting point for rendering the ontology class hierarchy. There can be more than one root." + "val" : "The role borne by a human being, an organization or an aggregate of either of both that is realized by being the active participant in a declaration." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ontology root term" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Nicolas Matentzoglu" - } ] + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000701", - "lbl" : "descriptive data section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021015", + "lbl" : "obsolete_document template creator role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document part that lists and defines data variables, describes data characteristics (e.g. missing data information) and any assumptions and simplifications made." + "val" : "The role of a human being or an aggregate of human beings preparing the initial document to undergo a document act, thus creating a socio-legal generically dependent continuant." }, + "comments" : [ "not that the \"template\" does not need to be a template at all. It can be a document that is getting stamped and signed and by these acts creating some socio-legal generically dependent continuants." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "descriptive data section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the role borne by the US Citizen and Immigration Service realized by providing the template form for entering the US as a non-resident alien, the role of a guideline committee in putting together a clinical guideline" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000702", - "lbl" : "additional results section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021016", + "lbl" : "duty holder role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A results section that reports analyses other than main results of the study (e.g. subgroups analyses, adjusted analyses, sensitivity analyses, etc.)" + "val" : "A deontic role that inheres in an agent A, that mutually depends on the existence of a claimant role borne by agent B, and that specifies A doing or abstaining from some acition C, or providing or surrendering C to B." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "additional results section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "val" : "J. Neil Otte" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/consort/" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" + "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/strobe/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" + "val" : "https://plato.stanford.edu/entries/rights/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000703", - "lbl" : "research participants section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021017", + "lbl" : "obsolete_claimant role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document part that describes human subject(s) that participated in a study (e.g. inclusion & exclusion criteria, recruitment methods, reasons for non-participation, grouping and randomisation, methods of follow-up, etc.)." + "val" : "The role of a human being or an aggregate of human beings concretizing a claim." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "research participants section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/consort/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/strobe-nut/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000704", - "lbl" : "measurement methods section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021018", + "lbl" : "obsolete_obligator role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A methods section that describes details of data assessment methods (data measurement)." + "val" : "The role of a human being or an aggregate of human beings concretizing an obligation." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "measurement methods section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/strobe/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000705", - "lbl" : "research settings section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021019", + "lbl" : "privilege holder role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document part that describes the physical/social/cultural conditions around a research trial." + "val" : "A deontic role that inheres in an agent A, that specifies that no agent B bears a claimant role against A doing C." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "research settings section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "val" : "J. Neil Otte" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.ncbi.nlm.nih.gov/books/NBK262175/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://plato.stanford.edu/entries/rights/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000706", - "lbl" : "study bias section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021020", + "lbl" : "obsolete_declaration target", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A study limitations section that describes systematic error introduced into sampling or testing by selecting or encouraging one outcome or answer over others." + "val" : "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study bias section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "me as a bearer of a spouse role, which participates in a document act, John Doe as bearer of a debtor role, which participates in a document act" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "DOI: 10.1097/PRS.0b013e3181de24bc" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000707", - "lbl" : "graphical abstract", + "id" : "http://purl.obolibrary.org/obo/IAO_0021021", + "lbl" : "document act template creator role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An abstract that is pictorial summary of the main findings described in the document." + "val" : "A role that inheres in a human being or organization or aggregate of any of the aforementioned that prepares a document that is the specified input to a document act and is the input document of a document act." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "graphical abstract" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The role of the U.S. Citizenship and Immigration Service realized by the creation of an immigration form that is being filled in, the role of a national professional association realized by the creation of a clinical guideline that is to be certified" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Tim Beck" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "visual abstract" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.elsevier.com/authors/journal-authors/graphical-abstract" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "Biomedical literature NLP project" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000708", - "lbl" : "ORCID identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0021022", + "lbl" : "deontic declaration performer role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A centrally registered identifier that is issued by ORCID (https://orcid.org/) and used to persistantly identify oneself as a human researcher or contributor." + "val" : "A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a declaration." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "\"You can connect your iD with your professional information — affiliations, grants, publications, peer review, and more. You can use your iD to share your information with other systems, ensuring you get recognition for all your contributions, saving you time and hassle, and reducing the risk of errors.\" [https://orcid.org/]" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This class was originally defined in Apollo_SV (http://purl.obolibrary.org/obo/APOLLO_SV_00000496) but due to it being more in scope of IAO, it was decided to add it to IAO and deprecate its Apollo_SV equivalent. (2022-10-25)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "http://orcid.org/0000-0002-1595-3213" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ORCID ID" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ORCiD" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "Open Researcher and Contributor ID" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "Open Researcher and Contributor Identifier" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://orcid.org/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/259" + "val" : "declaration performer role" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0006011", - "lbl" : "may be identical to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0021023", + "lbl" : "power role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A annotation relationship between two terms in an ontology that may refer to the same (natural) type but where more evidence is required before terms are merged." + "val" : "A deontic role that, if realized, is realized by its bearer’s creating, altering, or annulling some deontic role." }, - "comments" : [ "Edges asserting this should be annotated with to record evidence supporting the assertion and its provenance." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "may be identical to" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "J. Neil Otte" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "#40" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "VFB" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://plato.stanford.edu/entries/rights/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0006012", - "lbl" : "scheduled for obsoletion on or after", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0021030", + "lbl" : "obsoleted_document act target", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Used when the class or object is scheduled for obsoletion/deprecation on or after a particular date." + "val" : "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "scheduled for obsoletion on or after" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall, Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/15532" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/32" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "GO ontology" - } ] + "val" : "Mathias Brochhausen" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0010000", - "lbl" : "has axiom label", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0021031", + "lbl" : "document act performer role", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a document act." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has axiom id" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a judge's role of signing a court order" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A URI that is intended to be unique label for an axiom used for tracking change to the ontology. For an axiom expressed in different languages, each expression is given the same URI" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020000", - "lbl" : "identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0021032", + "lbl" : "obsolete_obligee role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." }, - "comments" : [ "Sep 29, 2016: The current definition has been amended from the previous version: \"A proper name is an information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity.\" to more accuratly reflect the necessary and sufficient condition on the class. (MB)" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "identifier" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" + "val" : "Sarah Bost" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "proper name" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020001", - "lbl" : "grapheme", + "id" : "http://purl.obolibrary.org/obo/IAO_0021033", + "lbl" : "obsolete_obligor role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is a fundamental unit in a written language." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." }, - "comments" : [ "Grapheme is not about anything and hence is likely to not be an information content entity. If a new subclass of GDC for information structure entities is created it should move there." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "alphabetic letters, Chinese characters, numerical digits, punctuation marks, and the individual symbols of any of the world's writing systems" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Grapheme" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "val" : "Sarah Bost" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020002", - "lbl" : "utterance", + "id" : "http://purl.obolibrary.org/obo/IAO_0021102", + "lbl" : "standing declaration", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An utterance is an information content entity that is a complete unit of speech in spoken language. " + "val" : "A social act that postulates a socio-legal fact for a specified group of people or organizations." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Wikipedia: http://en.wikipedia.org/wiki/Utterance" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "enactment" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020003", - "lbl" : "mechanical wave quality", + "id" : "http://purl.obolibrary.org/obo/IAO_0021300", + "lbl" : "obsolete obligor role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An attributive collection of qualities inhering in energy when transported through a medium in a wave." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "John Judkins" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" - } ] + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020004", - "lbl" : "writing quality", + "id" : "http://purl.obolibrary.org/obo/IAO_8000000", + "lbl" : "ontology module", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "is a quality that is the concretization of graphemes and inheres in a material object." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ontology module" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "I have placed this under 'data about an ontology part', but this can be discussed. I think this is OK if 'part' is interpreted reflexively, as an ontology module is the whole ontology rather than part of it." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ontology file" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This class and it's subclasses are applied to OWL ontologies. Using an rdf:type triple will result in problems with OWL-DL. I propose that dcterms:type is instead used to connect an ontology URI with a class from this hierarchy. The class hierarchy is not disjoint, so multiple assertions can be made about a single ontology." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020005", - "lbl" : "writing bearer", + "id" : "http://purl.obolibrary.org/obo/IAO_8000001", + "lbl" : "base ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "is a material information bearer that bears the concretization of graphemes." + "val" : "An ontology module that comprises only of asserted axioms local to the ontology, excludes import directives, and excludes axioms or declarations from external ontologies." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "pieces of paper, tables, walls, floors, driveways, highway signs, computer screens, skin, tablets of clay, rocks, sheets of metal (license plates), sheets of papyrus, etc. clouds of smoke in skywriting," - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "base ontology module" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/INCATools/ontology-starter-kit/issues/50" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020006", - "lbl" : "portion of energy", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020007", - "lbl" : "sound energy", + "id" : "http://purl.obolibrary.org/obo/IAO_8000002", + "lbl" : "editors ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Energy that is transported in a sound wave." + "val" : "An ontology module that is intended to be directly edited, typically managed in source control, and typically not intended for direct consumption by end-users." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "editors ontology module" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "source ontology module" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020008", - "lbl" : "utterance energy", + "id" : "http://purl.obolibrary.org/obo/IAO_8000003", + "lbl" : "main release ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Sound energy bearing the concretization of an utterance and being the output of an uttering process. " - } + "val" : "An ontology module that is intended to be the primary release product and the one consumed by the majority of tools." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "main release ontology module" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "TODO: Add logical axioms that state that a main release ontology module is derived from (directly or indirectly) an editors module" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020009", - "lbl" : "oscillating", + "id" : "http://purl.obolibrary.org/obo/IAO_8000004", + "lbl" : "bridge ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Oscillating is a processual that shows repetitive variation, typically in time, of some measured quality about a central value (often a point of equilibrium) or between two or more different states." + "val" : "An ontology module that consists entirely of axioms that connect or bridge two distinct ontology modules. For example, the Uberon-to-ZFA bridge module." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Oscillation" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "bridge ontology module" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/obophenotype/uberon/wiki/inter-anatomy-ontology-bridge-ontologies" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020010", - "lbl" : "identifier creating process", + "id" : "http://purl.obolibrary.org/obo/IAO_8000005", + "lbl" : "import ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identifier creating process is a planned process that provides a reference to an individual entity shared by a group of subscribers to refer to that individual entity." + "val" : "A subset ontology module that is intended to be imported from another ontology." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "import ontology module" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "dubbing process" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "TODO: add axioms that indicate this is the output of a module extraction process." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "naming" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "val" : "import file" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://robot.obolibrary.org/extract" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020011", - "lbl" : "utterance process", + "id" : "http://purl.obolibrary.org/obo/IAO_8000006", + "lbl" : "subset ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "is a planned process of making speech sounds which may or may not have an actual language involved. " + "val" : "An ontology module that is extracted from a main ontology module and includes only a subset of entities or axioms." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "subset ontology module" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wiktionary.org/wiki/utter" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ontology slim" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020012", - "lbl" : "obsolete_designates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "x designates y, if for any given group of language users, x is an information content entity, is about y, and represents y in a linguistic context.." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000228" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "subset ontology" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/IAO_0000219" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://robot.obolibrary.org/filter" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://www.geneontology.org/page/go-slim-and-subset-guide" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020013", - "lbl" : "is_borrowed_reference_to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_8000007", + "lbl" : "curation subset ontology module", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "x is_borrowed_reference_for y, if x is a proper name that is used to refer to one individual among a specific group after the dubbing process took place." + "val" : "A subset ontology that is intended as a whitelist for curators using the ontology. Such a subset will exclude classes that curators should not use for curation." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "curation subset ontology module" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020014", - "lbl" : "is_fixing_reference_to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_8000008", + "lbl" : "analysis subset ontology module", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "x is_fixed_reference_for y, if x is an utterance or graphemes concretized as writing quality inhering in some independent continuant that is used to single out one individual and refer to the latter among a specific group after the." + "val" : "An ontology module that is intended for usage in analysis or discovery applications." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "analysis ontology module" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020015", - "lbl" : "personal name", + "id" : "http://purl.obolibrary.org/obo/IAO_8000009", + "lbl" : "single layer subset ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identifier referring to an individual entity that is ascribed personhood by the user of the identifier." + "val" : "A subset ontology that is largely comprised of a single layer or strata in an ontology class hierarchy. The purpose is typically for rolling up for visualization. The classes in the layer need not be disjoint." }, - "comments" : [ "Personal names \"today usually comprises a given name bestowed at birth or at a young age plus a surname. It is nearly universal for a human to have a name; except in rare cases, for example feral children growing up in isolation, or infants orphaned by natural disaster for whom no written record survives.[citation needed] The Convention on the Rights of the Child specifies that a child has the right from birth to a name. Certain isolated tribes, such as the Machiguenga of the Amazon, also lack personal names.\" (http://en.wikipedia.org/wiki/Personal_name)", "Personal names to not include names of fictional characters, e.g. Sherlock Holmes.", "Sep 29, 2016: The comment that including the wikipedia definition of personal name is not to be interpreted in a way that restricts this class to only contain strings of letters. A numerical or alphanumerical identifier that denotes a human is being is a personal name, too. (MB)" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Personal_name" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "single layer ontology module" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ribbon subset" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020016", - "lbl" : "given name", + "id" : "http://purl.obolibrary.org/obo/IAO_8000010", + "lbl" : "exclusion subset ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A personal name that specifies and differentiates between members of a group of individuals, especially in a family, all of whose members usually share the same family name (surname). A given name is purposefully given, usually by a child's parents at or near birth, in contrast to an inherited one such as a family name" + "val" : "A subset of an ontology that is intended to be excluded for some purpose. For example, a blacklist of classes." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "exclusion subset ontology module" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "first name" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Given_name" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "val" : "antislim" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020017", - "lbl" : "family name", + "id" : "http://purl.obolibrary.org/obo/IAO_8000011", + "lbl" : "external import ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identifier that is typically a part of a person's name which has been passed, according to law or custom, from one or both parents to their children." + "val" : "An imported ontology module that is derived from an external ontology. Derivation methods include the OWLAPI SLME approach." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "external import ontology module" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "last name" + "val" : "external import" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_8000012", + "lbl" : "species subset ontology module", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A subset ontology that is crafted to either include or exclude a taxonomic grouping of species." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "species subset ontology module" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "surname" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Family_name" + "val" : "taxon subset" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/obophenotype/uberon/wiki/Taxon-constraints" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020018", - "lbl" : "is designated by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_8000013", + "lbl" : "reasoned ontology module", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "p1 is designated by p2, if p2 is an information content entity that represents p1 in a linguistic context." + "val" : "An ontology module that contains axioms generated by a reasoner. The generated axioms are typically direct SubClassOf axioms, but other possibilities are available." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "reasoned ontology module" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://robot.obolibrary.org/reason" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020019", - "lbl" : "IUI", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_8000014", + "lbl" : "generated ontology module", + "type" : "CLASS", "meta" : { - "comments" : [ "An annotation to be applied to individuals only. Value is a GUID/UUID for use in a referent tracking system." ], + "definition" : { + "val" : "An ontology module that is automatically generated, for example via a SPARQL query or via template and a CSV." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "instance unique identifier" + "val" : "generated ontology module" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "TODO: Add axioms (using PROV-O?) that indicate this is the output-of some reasoning process" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020020", - "lbl" : "code set", + "id" : "http://purl.obolibrary.org/obo/IAO_8000015", + "lbl" : "template generated ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is a collection of other information content entities that has been created to identify or annotate things in a specified domain, and where the intention of its creators is that the collection has a one-to-one correspondence with those things." + "val" : "An ontology module that is automatically generated from a template specification and fillers for slots in that template." }, - "comments" : [ "Code sets might include non-entities/things (e.g. missing thumbs).", "Does not imply absence vs. presence of any taxonomy.", "Does not imply that aggregated entities denote particulars, universals, or defined classes (a.k.a. attributive collections) or even that they denote only one of these three types of entities.", "Each aggregated entity is often (but not necessarily) associated with a text string—variously called a “description,” “name,” “title,” or “label”—that helps humans reach the target of denotation.\n\nWhen there is no such string, it is almost always because the entities take the form of human language words. For example, a “sex” or “gender” code set could contain “MALE” and “FEMALE,” or even “M” and “F” (by convention, we understand what these mean).", "For National Drug Codes (NDCs) and similar code sets, there doesn’t even have to be a single, fully-concretized copy somewhere (for example, for NDCs there is no centralized database or repository where they all live as one instance of concretization of code set). The code set can be “distributively” concretized. This seems like an unusual exception, but it also likely applies to Universal Product Codes (UPCs) and their follow on Global Trade Item Numbers (GTINs).", "For each given domain, there can potentially exist multiple code sets. The multiplicity of code sets is partially due to the different specific purposes of those code sets.", "Many code sets are created for a specific purpose in addition to merely identifying or annotating core ideas of a specified domain.", "The information content entities do not denote each other." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "code map" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "code system" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "codeset" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "coding system" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "controlled vocabulary" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "template generated ontology module" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matt Diller" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://robot.obolibrary.org/template" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://doi.org/10.1186/s13326-017-0126-0" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/dosumis/dead_simple_owl_design_patterns/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020021", - "lbl" : "identity document", + "id" : "http://purl.obolibrary.org/obo/IAO_8000016", + "lbl" : "taxonomic bridge ontology module", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A document that denotes some identity and is concretized by the bearer of some credential role." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "taxonomic bridge ontology module" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020022", - "lbl" : "documented identity", + "id" : "http://purl.obolibrary.org/obo/IAO_8000017", + "lbl" : "ontology module subsetted by expressivity", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A documented identity is the aggregate of all data items about an entity. Notice that a documented identity is not itself a document since a document is intended to be understood as a whole and data items about an individual are usually scattered across different documents." - }, - "comments" : [ "is an aggregate of ICEs also an ICE? yes\nIs part_of the appropriate relation to use for data items and documented identities?" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ontology module subsetted by expressivity" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020023", - "lbl" : "authentication", + "id" : "http://purl.obolibrary.org/obo/IAO_8000018", + "lbl" : "obo basic subset ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Authentication is the act of checking or verifying an identity claim (that is either tacit or explicit).\n" + "val" : "A subset ontology that is designed for basic applications to continue to make certain simplifying assumptions; many of these simplifying assumptions were based on the initial version of the Gene Ontology, and have become enshrined in many popular and useful tools such as term enrichment tools.\n\nExamples of such assumptions include: traversing the ontology graph ignoring relationship types using a naive algorithm will not lead to cycles (i.e. the ontology is a DAG); every referenced term is declared in the ontology (i.e. there are no dangling clauses).\n\nAn ontology is OBO Basic if and only if it has the following characteristics:\nDAG\nUnidirectional\nNo Dangling Clauses\nFully Asserted\nFully Labeled\nNo equivalence axioms\nSingly labeled edges\nNo qualifier lists\nNo disjointness axioms\nNo owl-axioms header\nNo imports" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : " I order a beer and the bartender authenticates my age by looking at my DOB on my driver's license. I sign into my email account, and the system authenticates my permission to read the email by checking the password I enter against my password listed in the database." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "obo basic subset ontology module" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://owlcollab.github.io/oboformat/doc/obo-syntax.html#6.2" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020024", - "lbl" : "credential role", + "id" : "http://purl.obolibrary.org/obo/IAO_8000019", + "lbl" : "ontology module subsetted by OWL profile", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A role that inheres in a concretization of an identity document and is realized by an authentication process." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ontology module subsetted by OWL profile" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020025", - "lbl" : "obsolete obligor role", + "id" : "http://purl.obolibrary.org/obo/IAO_8000020", + "lbl" : "EL++ ontology module", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "EL++ ontology module" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/MF_0000030", + "lbl" : "representation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." + "val" : "A dependent continuant which is about a portion of reality." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obligor role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Sam's obligor role realized by him taking Nigel to lunch after promising to do so; Sarah's obligor role realized by paying the purchase price to Layla after signing the contract specifying that she is buying a piece of land from Layla." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Sarah Bost" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "duty holder role (IAO:210016)" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.jbiomedsem.com/content/1/1/10" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020026", - "lbl" : "obsolete obligee role", + "id" : "http://purl.obolibrary.org/obo/MF_0000031", + "lbl" : "cognitive representation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." + "val" : "A representation which specifically depends on an anatomical structure in the cognitive system of an organism." }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.jbiomedsem.com/content/1/1/10" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_9606", + "lbl" : "Homo sapiens", + "type" : "CLASS", + "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obligee role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Nigel's obligee role realized by Sam taking him out for lunch after Sam so promised; Layla's obligee role realized by receiving the money after signing a contract in which Sarah obtained a piece of land in exchange for a specified sum of money." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Homo sapiens" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "human being" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "claimant role (IAO:0021013)" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/ncbitaxon.owl" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020027", - "lbl" : "owner role", + "id" : "http://purl.obolibrary.org/obo/OAE_0000002", + "lbl" : "medical intervention", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role in a human social process that is based on a social act and whose bearer exercises exclusive control over a property, where this control is permitted by one or more deontic roles, which are parts of the owner role." + "val" : "medical intervention is a planned process that has the goal of diagnosing, preventing or relieving illness or injury." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Tammy's owner role with regards to the house on 234 Evergreen Terrace; Walter's owner role with regards to the intellectual property on his movie script" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "The act of intervening, interfering or interceding with the intent of modifying the outcome. In medicine, an intervention is usually undertaken to help treat or cure a condition. For example, \"Acupuncture as a therapeutic intervention is widely practiced in the United States,\" \nReference:\nhttp://www.medterms.com/script/main/art.asp?articlekey=34214 . Some interventions can be used for diagnosis. " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBIB/ICO community" + "val" : "YH" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/d-acts/d-acts/issues/29" + "val" : "WEB: http://wiki.answers.com/Q/What_is_medical_intervention" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021000", - "lbl" : "obsolete_claim", + "id" : "http://purl.obolibrary.org/obo/OAE_0000067", + "lbl" : "surgery", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Surgery is a medical procedure that uses operative manual and instrumental techniques on a patient to investigate and/or treat a pathological condition such as disease or injury, to help improve bodily function or appearance. The key difference between a surgery and a general procedure is the need for an incision. Making an incision, or cutting into the skin to gain access to the body’s deeper tissues or organs, is a defining characteristic of surgery." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "YH, SS" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "surgical procedure" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Surgery" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm" + }, { + "pred" : "http://purl.obolibrary.org/obo/OAE_0004334", + "val" : "10042609" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021001", - "lbl" : "deontic document act", + "id" : "http://purl.obolibrary.org/obo/OAE_0002807", + "lbl" : "medical procedure", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." + "val" : "a medical intervention that refers to any series of pre-defined steps that should be followed to achieve a desired result." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my filling in an immigration form, a judge's signing and stamping a court order" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "YH, SS" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021002", - "lbl" : "obsolete_document act", + "id" : "http://purl.obolibrary.org/obo/OBIB_0000667", + "lbl" : "survey data", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act creating, revoking or transferring a socio-legal generically dependent continuant or a role by validating (signing, stamping, publishing) a document." + "val" : "A data item that contains the outcome of a survey." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my filling in an immigration form, a judge's signing and stamping a court order" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alice Nzinga" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibary.org/obo/IAO_0021001" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021003", - "lbl" : "social act", + "id" : "http://purl.obolibrary.org/obo/OBIB_0000701", + "lbl" : "survey plan specification", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that is carried out by a conscious being or an organization, and is self-generated, directed towards another conscious being or an aggregate of conscious beings, an organization or an aggregate of organizations, and that is in need of being perceived." + "val" : "A plan specification that is realized by process of gathering information (e.g. by asking questions)." }, - "comments" : [ "The phrase \"in need of being perceived\" does not imply that only planned processes that are in fact perceived can be social acts. Reinach clarifies that by exemplifying these matters for commands: \"The command is according to its essence in need of being heard (vernehmungsbedürtig\". It can of course happen that commands are given without being heard. Then they fail to fulfil their purpose. They are like thrown spears which fall to the ground without hitting their target.\" (A. Reinach: The Apriori Foundations of the Civil Law.\" Edited by J. Crosby, Heusenstamm: ontos Verlag, 2012).\nReinach clearly does not imply that a command that does not fulfill its prupose would not be a command.\nThanks to W.R. Hogan for finding the Reinach quote." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Colonel Klink giving Sergeant Schultz an order, Jake promising Jill to take her to the junior prom" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alice Nzinga" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021004", - "lbl" : "obsolete_socio-legal generically dependent continuant", + "id" : "http://purl.obolibrary.org/obo/OBIB_0000710", + "lbl" : "survey execution", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Socio-legal generically dependent continuants are generically dependent continuants that come into existence through social acts and that if they get concretized are concretized as realizable entities." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the claim of a piece of land, the obligation to pay rent to the owner of a rental property" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + "val" : "A planned process that realizes the concretization of a survey to generate an output(survey data.)" + } } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021005", - "lbl" : "obsolete_deontic declaration", + "id" : "http://purl.obolibrary.org/obo/OBI_0000011", + "lbl" : "planned process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act that brings about, transfers or revokes a socio-legal generically dependent continuant or brings about or transforms a role. Declarations do not depend on words spoken or written, but sometimes are merely actions, for instance the signing of a document." + "val" : "A process that realizes a plan which is the concretization of a plan specification." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "deontic declaration" + "val" : "planned process" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "planned process" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my consenting verbally to buy a used TV set for $ 500, John Robie's taking of Mrs. Steven's jewels, Jane Doe's revoking of informed consent over the phone, John Doe signing an employment contract." + "val" : "Injecting mice with a vaccine in order to test its efficacy" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "status function declaration" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some \nobjectives is a planned process." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021006", - "lbl" : "obsolete obligee role", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." - }, - "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + "val" : "Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "branch derived" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "6/11/9: Edited at workshop. Used to include: is initiated by an agent" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021007", - "lbl" : "document act input document", + "id" : "http://purl.obolibrary.org/obo/OBI_0000066", + "lbl" : "investigation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document that is intended to be the specified input in a document act. It has a plan specification as a part that specifies the intended socio-legal entities that are created through the document (objective specification) and the way in which the document act is to be performed (by signing, by stamping, etc.) (action specification)." + "val" : "a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s)." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "investigation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021008", - "lbl" : "deontic role", + "id" : "http://purl.obolibrary.org/obo/OBI_0000245", + "lbl" : "organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that inheres in an agent and which is externally grounded in the normative expectations that other agents within a social context have concerning how that agent should behave." + "val" : "An organization is a continuant entity which can play roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "organization" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "PMID: 16353909.AAPS J. 2005 Sep 22;7(2):E274-80. Review. The joint food and agriculture organization of the United Nations/World Health Organization Expert Committee on Food Additives and its role in the evaluation of the safety of veterinary drug residues in foods." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BP: The definition summarizes long email discussions on the OBI developer, roles, biomaterial and denrie branches. It leaves open if an organization is a material entity or a dependent continuant, as no consensus was reached on that. The current placement as material is therefore temporary, in order to move forward with development. Here is the entire email summary, on which the definition is based:\n\n1) there are organization_member_roles (president, treasurer, branch\neditor), with individual persons as bearers\n\n2) there are organization_roles (employer, owner, vendor, patent holder)\n\n3) an organization has a charter / rules / bylaws, which specify what roles\nthere are, how they should be realized, and how to modify the\ncharter/rules/bylaws themselves.\n\nIt is debatable what the organization itself is (some kind of dependent\ncontinuant or an aggregate of people). This also determines who/what the\nbearer of organization_roles' are. My personal favorite is still to define\norganization as a kind of 'legal entity', but thinking it through leads to\nall kinds of questions that are clearly outside the scope of OBI.\n\nInterestingly enough, it does not seem to matter much where we place\norganization itself, as long as we can subclass it (University, Corporation,\nGovernment Agency, Hospital), instantiate it (Affymetrix, NCBI, NIH, ISO,\nW3C, University of Oklahoma), and have it play roles.\n\nThis leads to my proposal: We define organization through the statements 1 -\n3 above, but without an 'is a' statement for now. We can leave it in its\ncurrent place in the is_a hierarchy (material entity) or move it up to\n'continuant'. We leave further clarifications to BFO, and close this issue\nfor now." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "PERSON: Alan Ruttenberg" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Neil Otte" + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Philippe Rocca-Serra" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Susanna Sansone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP: OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021009", - "lbl" : "deontic declaration", + "id" : "http://purl.obolibrary.org/obo/OBI_0000471", + "lbl" : "study design execution", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act that creates or revokes a deontic role." + "val" : "a planned process that carries out a study design" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "study design execution" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021010", - "lbl" : "obsolete_obligation", + "id" : "http://purl.obolibrary.org/obo/OBI_0100026", + "lbl" : "organism", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "organism" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "animal" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "fungus" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "plant" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "virus" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000121" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "13-02-2009:\nOBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus.\nThis issue is outside the scope of OBI." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "GROUP: OBI Biomaterial Branch" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Organism" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021011", - "lbl" : "legally revokes", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OBI_0200000", + "lbl" : "data transformation", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "d socio-legally revokes s if s participates in d and at the end of d s no longer exists.\nIt is important to note that this going out of existence of s is complete and unlike the going out of existence for material entities which basically always are transformed into something else. After the declaration nothing is left of the socio-legal generically dependent continuant in question." + "val" : "A planned process that produces output data from input data." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "data transformation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The application of a clustering protocol to microarray data or the application of a statistical testing method on a primary data set to determine a p-value." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Elisabetta Manduchi" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Helen Parkinson" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "James Malone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Philippe Rocca-Serra" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Richard Scheuermann" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Ryan Brinkman" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Tina Hernandez-Boussard" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data analysis" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data processing" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Branch editors" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021012", - "lbl" : "obsolete_legally transfers", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OBI_0500000", + "lbl" : "study design", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "d socio-legally transfers l if l participates in d and d has specified input (concretization of l)1 and specified output (concretization of l)2, where (concretization of l)1 and (concretization of l)2 are not identical." + "val" : "A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "study design" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021013", - "lbl" : "claimant role", + "id" : "http://purl.obolibrary.org/obo/OBI_0600052", + "lbl" : "dialysis", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic role that inheres in an agent A, that mutually depends on the existence of a duty holder role borne by agent B, and that specifies B doing or abstaining from C, or providing or surrendering C to A." + "val" : "a protocol application that uses diffusion through a semi-permeable membrane to separate an input material into two fractions of different composition" }, - "comments" : [ "Claimant roles can either be discharged by one act of fulfilling a duty (e.g. when I pay back $5 owed to a friend) or they can remain intact and require ongoing adhering to a duty. \nhttps://plato.stanford.edu/entries/rights/#FormRighHohfAnalSyst discuss the claim of a child to freedom from abuse. That claim remains in existence and the duty to not abuse the child needs to be continuously be acted upon, by a multitude of agents (which all have a duty holder role). This claim is mutually dependent on the duty to abstain from abusing the child." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "J. Neil Otte" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "dialysis" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the use of a dialysis bag of select pore size to remove salt from collagen isolated from mouse cartilage" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Kevin Clancy" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://plato.stanford.edu/entries/rights/" + "val" : "OBI branch derived" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021014", - "lbl" : "obsolete_declaration executive role", + "id" : "http://purl.obolibrary.org/obo/OGMS_0000097", + "lbl" : "health care encounter", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The role borne by a human being, an organization or an aggregate of either of both that is realized by being the active participant in a declaration." + "val" : "A temporally-connected health care process that has as participants an organization or person realizing the health care provider role and a person realizing the patient role. The health care provider role and patient are realized during the health care encounter" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Albert Goldfain" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "creation date: 2011-02-21T09:57:44Z" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021015", - "lbl" : "obsolete_document template creator role", + "id" : "http://purl.obolibrary.org/obo/OGMS_0000100", + "lbl" : "inpatient encounter", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The role of a human being or an aggregate of human beings preparing the initial document to undergo a document act, thus creating a socio-legal generically dependent continuant." + "val" : "A health care encounter involving a patient who has been admitted to a health care facility and remains in a hospital facility for at least one night." }, - "comments" : [ "not that the \"template\" does not need to be a template at all. It can be a document that is getting stamped and signed and by these acts creating some socio-legal generically dependent continuants." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role borne by the US Citizen and Immigration Service realized by providing the template form for entering the US as a non-resident alien, the role of a guideline committee in putting together a clinical guideline" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Albert Goldfain" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "creation date: 2011-02-21T09:57:44Z" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021016", - "lbl" : "duty holder role", + "id" : "http://purl.obolibrary.org/obo/OGMS_0000102", + "lbl" : "injury", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic role that inheres in an agent A, that mutually depends on the existence of a claimant role borne by agent B, and that specifies A doing or abstaining from some acition C, or providing or surrendering C to B." + "val" : "A disorder that involves some structural damage that is immediately caused by a catastrophic external force." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "J. Neil Otte" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "At the scale of organism (as opposed to the cellular scale or the population scale), an injury is typically the result of a catastrophic event. Consider the implications of making 'injury' a subtype of 'disorder'.\n\nNote: Adopted subtype of disorder, and injury can occur at the scale of organism down to cellular level." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Albert Goldfain\nSagar Jain" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." + "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/ca0ad373f27774c5\n\nOGMS call adoption- 16 SEPT 2015\nhttps://docs.google.com/document/d/1iiV1-fTS7BUUSzDw3N_Afx42698YWf54-FOTY2NkAxo/edit" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://plato.stanford.edu/entries/rights/" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "creation date: 2011-09-20T09:57:44Z\nedited date: 30 SEPT 2015" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021017", - "lbl" : "obsolete_claimant role", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000060", + "lbl" : "obsolete survey data", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "The role of a human being or an aggregate of human beings concretizing a claim." - }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alice Nzinga" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000667" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021018", - "lbl" : "obsolete_obligator role", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0001025", + "lbl" : "obsolete survey plan specification", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "The role of a human being or an aggregate of human beings concretizing an obligation." - }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alice Nzinga" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000701" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021019", - "lbl" : "privilege holder role", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0001035", + "lbl" : "obsolete survey execution", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000710" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000000", + "lbl" : "social security number", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic role that inheres in an agent A, that specifies that no agent B bears a claimant role against A doing C." + "val" : "Social Security Number(SSN) is a Centrally Registered IDentifier that is a nine-digit number issued to U.S. citizens, permanent residents, and temporary (working) residents under section 205(c) of the Social Security Act, codified as 42 U.S.C. § 405(c). The number is issued to an individual by the Social Security Administration, an independent agency of the United States government. Its primary purpose is to track individuals for Social Security purposes." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "J. Neil Otte" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "SSN" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." + "val" : "http://en.wikipedia.org/wiki/Social_Security_number" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://plato.stanford.edu/entries/rights/" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Cheng Chen(cxchen1@ualr.edu)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021020", - "lbl" : "obsolete_declaration target", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000001", + "lbl" : "human social role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." + "val" : "A social role inhering in a human being." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "me as a bearer of a spouse role, which participates in a document act, John Doe as bearer of a debtor role, which participates in a document act" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021021", - "lbl" : "document act template creator role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000002", + "lbl" : "party to a legal entity", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000003", + "lbl" : "party to a legal proceeding", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000004", + "lbl" : "party to a legal agreement", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000005", + "lbl" : "party to a marriage contract", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000006", + "lbl" : "party to a power of attorney", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000007", + "lbl" : "gender role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that inheres in a human being or organization or aggregate of any of the aforementioned that prepares a document that is the specified input to a document act and is the input document of a document act." + "val" : "A human social role borne by a human being being realized in behaviour which is considered socially appropriate for individuals of a specific sex in the context of a specific culture." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The role of the U.S. Citizenship and Immigration Service realized by the creation of an immigration form that is being filled in, the role of a national professional association realized by the creation of a clinical guideline that is to be certified" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Gender_role" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021022", - "lbl" : "deontic declaration performer role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000008", + "lbl" : "male gender role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a declaration." + "val" : "A gender role borne by a human being that is realized in behaviour which is considered socially appropriate for individuals of the male sex in the context of the culture in question." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration performer role" + "val" : "male gender" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021023", - "lbl" : "power role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000009", + "lbl" : "female gender role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic role that, if realized, is realized by its bearer’s creating, altering, or annulling some deontic role." + "val" : "A gender role borne by a human being that is realized in behaviour which is considered socially appropriate for individuals of the female sex in the context of the culture in question." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "J. Neil Otte" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://plato.stanford.edu/entries/rights/" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "female gender" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021030", - "lbl" : "obsoleted_document act target", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000010", + "lbl" : "human health care role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." + "val" : "A role in human social processes that is realized by health care processes such as seeking or providing treatment for disease and injury, diagnosing disease and injury, or undergoing diagnosis." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "health care role" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021031", - "lbl" : "document act performer role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000011", + "lbl" : "patient role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a document act." + "val" : "A role borne by an organism and that is realized by presenting to a health care provider in a clinical encounter." }, + "comments" : [ "In order to avoid the presumption of the formal structures and institutions of Western civilization, bearing a patient role does not entail that the organism presents at an official place of business, with an organization formally and legally registered with various gov't entities, with a person endowed by the gov't with certain certifications." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a judge's role of signing a court order" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "patient" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "CAFE domain expert working group." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021032", - "lbl" : "obsolete_obligee role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000012", + "lbl" : "health care provider role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." + "val" : "A human health care role inhering in an organization or human being that is realized by a process of providing health care services to an organism." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Sarah Bost" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021033", - "lbl" : "obsolete_obligor role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000013", + "lbl" : "physician role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." + "val" : "A health care role borne by a human being and realized by promoting, maintaining or restoring human health through the study, diagnosis, and treatment of disease, injury and other physical and mental impairments." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Sarah Bost" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "physician" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Physician" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021102", - "lbl" : "standing declaration", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000014", + "lbl" : "nurse role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act that postulates a socio-legal fact for a specified group of people or organizations." + "val" : "A health care role borne by a human being and realized by the care of individuals, families, and communities so they may attain, maintain, or recover optimal health and quality of life." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "enactment" + "val" : "nurse" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "based on: http://en.wikipedia.org/wiki/Nursing" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021300", - "lbl" : "obsolete obligor role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000015", + "lbl" : "health care provider organization role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." + "val" : "A role that inheres in an organization and that is realized by the providing of services in a health care encounter." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Amanda Hicks" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0100001", - "lbl" : "term replaced by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000016", + "lbl" : "person health care provider role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000017", + "lbl" : "physician practice", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Use on obsolete terms, relating the term to another term that can be used as a substitute" + "val" : "A health care provider organization role that inheres in an organization consisting of two or more physicians." }, - "comments" : [ "Add as annotation triples in the granting ontology" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "term replaced by" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000000", - "lbl" : "ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000018", + "lbl" : "obsolete_hospital role", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A role borne by an organization and realized by providing healthcare services by healthcare professionals of multiple different disciplines of medicine and enabling stationary treatment." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "I have placed this under 'data about an ontology part', but this can be discussed. I think this is OK if 'part' is interpreted reflexively, as an ontology module is the whole ontology rather than part of it." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ontology file" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This class and it's subclasses are applied to OWL ontologies. Using an rdf:type triple will result in problems with OWL-DL. I propose that dcterms:type is instead used to connect an ontology URI with a class from this hierarchy. The class hierarchy is not disjoint, so multiple assertions can be made about a single ontology." - } ] + "val" : "hospital" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000001", - "lbl" : "base ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000019", + "lbl" : "integrated delivery network", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that comprises only of asserted axioms local to the ontology, excludes import directives, and excludes axioms or declarations from external ontologies." + "val" : "A health care provider organization role that inheres in an organization that is comprised of other organizations." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "base ontology module" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://github.com/INCATools/ontology-starter-kit/issues/50" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000002", - "lbl" : "editors ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000022", + "lbl" : "collection of organisms", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is intended to be directly edited, typically managed in source control, and typically not intended for direct consumption by end-users." + "val" : "An object aggregate of organisms." }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "editors ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "source ontology module" - } ] + "comments" : [ "Any arbitrary collection of organisms. They need not be of the same taxonomic class. " ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000003", - "lbl" : "main release ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000023", + "lbl" : "collection of humans", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is intended to be the primary release product and the one consumed by the majority of tools." + "val" : "An object aggregate all of whose components are human beings." }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "main release ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "TODO: Add logical axioms that state that a main release ontology module is derived from (directly or indirectly) an editors module" - } ] + "comments" : [ "An object aggregate all of whose components are human beings." ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000004", - "lbl" : "bridge ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000024", + "lbl" : "obsolete role in human social processes", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that consists entirely of axioms that connect or bridge two distinct ontology modules. For example, the Uberon-to-ZFA bridge module." + "val" : "A role inhering in an entity realized by social interactions in human society." }, + "comments" : [ "Previous definition: A role played by an entity in human social processes." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "bridge ontology module" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://github.com/obophenotype/uberon/wiki/inter-anatomy-ontology-bridge-ontologies" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000005", - "lbl" : "import ontology module", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000025", + "lbl" : "organization social role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset ontology module that is intended to be imported from another ontology." + "val" : "A role in human social processes that inheres in an organization." }, + "comments" : [ "Defined class that we will ultimately move to an application ontology. We are leaving here for now until we determine which application ontology: it is likely going to be an ontology that does not currently (2012-06-05) exist.\n\nDitto for its current descendants." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "import ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "TODO: add axioms that indicate this is the output of a module extraction process." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "import file" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://robot.obolibrary.org/extract" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000006", - "lbl" : "subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000026", + "lbl" : "organism social role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is extracted from a main ontology module and includes only a subset of entities or axioms." + "val" : "A role in human social processes that inheres in an organism." }, + "comments" : [ "Defined class that we will ultimately move to an application ontology. We are leaving here for now until we determine which application ontology: it is likely going to be an ontology that does not currently (2012-06-05) exist.\n\nDitto for its current descendants.", "Includes animals as well as humans. For example, pet, assistance animal, animal grown for food, work animal, domesticated animal, K-9, etc. Human roles include gender role, party to legal entities, health care provider roles like doctor, nurse, etc.", "Previous definition: A role in human social processes played by an organism." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "subset ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ontology slim" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "subset ontology" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://robot.obolibrary.org/filter" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://www.geneontology.org/page/go-slim-and-subset-guide" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan\nMathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000007", - "lbl" : "curation subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000027", + "lbl" : "organization health care role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset ontology that is intended as a whitelist for curators using the ontology. Such a subset will exclude classes that curators should not use for curation." + "val" : "An organization social role that, if realized, is realized by either a health care process or an ancillary health care process" }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "curation subset ontology module" - } ] + "comments" : [ "Previous definition: An organization social role played by an organization in health care processes." ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000008", - "lbl" : "analysis subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000028", + "lbl" : "obsolete geopolitical organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is intended for usage in analysis or discovery applications." + "val" : "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii)." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "analysis ontology module" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "geopolitical organization" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000009", - "lbl" : "single layer subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000029", + "lbl" : "obsolete geopoli organization", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A subset ontology that is largely comprised of a single layer or strata in an ontology class hierarchy. The purpose is typically for rolling up for visualization. The classes in the layer need not be disjoint." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "single layer ontology module" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ribbon subset" - } ] + "val" : "geopoli organization" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000010", - "lbl" : "exclusion subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000030", + "lbl" : "human patient role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset of an ontology that is intended to be excluded for some purpose. For example, a blacklist of classes." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "exclusion subset ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "antislim" - } ] + "val" : "A patient role that inheres in a human being." + } } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000011", - "lbl" : "external import ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000031", + "lbl" : "obsolete major administrative subdivision", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An imported ontology module that is derived from an external ontology. Derivation methods include the OWLAPI SLME approach." + "val" : "A subnational entity that is the primary organizational member of a nation, is subject to the full set of laws of the nation, enjoys all the privileges established under the laws of the nation, is not a member of any other geopolitical entity, and itself governs a part of the geographical region governed by the nation." }, + "comments" : [ "example: Northern Ireland" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "external import ontology module" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "external import" - } ] + "val" : "major administrative subdivision" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000012", - "lbl" : "species subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000032", + "lbl" : "obsolete geopolitical dependency", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset ontology that is crafted to either include or exclude a taxonomic grouping of species." + "val" : "A subnational entity that does not possess full political independence or sovereignty as a sovereign state, but remains politically outside of the controlling state and controls a geographical region that is outside the controlling state's integral region." }, + "comments" : [ "Typically, the common feature is that the dependency does not conduct foreign affairs, and relegates this authority to the sovereign state. BUt otherwise, it is largely or completely autonomous relative to the administrative subdivisions. Examples include Puerto Rico (U.S.), Guam (U.S.), Greenland (Denmark), French Polynesia (France), and Falkland Islands (United Kingdom). " ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "species subset ontology module" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "taxon subset" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://github.com/obophenotype/uberon/wiki/Taxon-constraints" - } ] + "val" : "geopolitical dependency" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000013", - "lbl" : "reasoned ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000033", + "lbl" : "aggregate of organizations", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that contains axioms generated by a reasoner. The generated axioms are typically direct SubClassOf axioms, but other possibilities are available." + "val" : "An object aggregate that is not itself an organization and whose members are only organizations that have some feature in common" }, + "comments" : [ "It is often convenient to group organizations together that otherwise might not even interact with one another. " ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "reasoned ontology module" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://robot.obolibrary.org/reason" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan\nAmanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/omrse/releases/2022-04-06/omrse.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000014", - "lbl" : "generated ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000034", + "lbl" : "obsolete aggregate of sovereign states", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is automatically generated, for example via a SPARQL query or via template and a CSV." + "val" : "An aggregate of sovereign states that share some feature in common, but is not an organization nor necessarily the outcome of some treaty among them." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "generated ontology module" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "An aggregate of geopoli organizations that is not itself a sovereign state and whose members are only sovereign states that have some feature in common" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "TODO: Add axioms (using PROV-O?) that indicate this is the output-of some reasoning process" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "aggregate of sovereign states" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000015", - "lbl" : "template generated ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000035", + "lbl" : "obsolete aggregate of geopoli organizations", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is automatically generated from a template specification and fillers for slots in that template." + "val" : "An object aggregate that is not itself a geopolitical organization and whose members are only geopolitical organizations that have some feature in common" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "template generated ontology module" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://robot.obolibrary.org/template" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://doi.org/10.1186/s13326-017-0126-0" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://github.com/dosumis/dead_simple_owl_design_patterns/" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "aggregate of geopoli organizations" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000016", - "lbl" : "taxonomic bridge ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000036", + "lbl" : "obsolete aggregate of dependencies", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An aggregate of geopoli organizations that is not itself a geopolitical dependency and whose members are only geopolitical dependencies that have some feature in common." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "taxonomic bridge ontology module" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "aggregate of dependencies" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000017", - "lbl" : "ontology module subsetted by expressivity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000037", + "lbl" : "obsolete aggregate of major administrative subdivisions", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An aggregate of geopoli organizations that is not itself a major administrative subdivision and whose members are only major administrative subdivisions that have some feature in common" + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ontology module subsetted by expressivity" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "aggregate of major administrative subdivisions" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000018", - "lbl" : "obo basic subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000038", + "lbl" : "legal person role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset ontology that is designed for basic applications to continue to make certain simplifying assumptions; many of these simplifying assumptions were based on the initial version of the Gene Ontology, and have become enshrined in many popular and useful tools such as term enrichment tools.\n\nExamples of such assumptions include: traversing the ontology graph ignoring relationship types using a naive algorithm will not lead to cycles (i.e. the ontology is a DAG); every referenced term is declared in the ontology (i.e. there are no dangling clauses).\n\nAn ontology is OBO Basic if and only if it has the following characteristics:\nDAG\nUnidirectional\nNo Dangling Clauses\nFully Asserted\nFully Labeled\nNo equivalence axioms\nSingly labeled edges\nNo qualifier lists\nNo disjointness axioms\nNo owl-axioms header\nNo imports" + "val" : "A role borne by a human individual or by a collection of humans regarded as possessing rights and duties enforeable at law." }, + "comments" : [ "We are aware of the fact that Wikipedia's definition differs from ours by saying that \"Legal personality (...) is the characteristic of a non-living entity regarded by law to have the status of personhood\" (http://en.wikipedia.org/wiki/Legal_personality) \nHowever, Shaw explicates:\n\"In any legal system, certain entities, whether they be individuals or companies, will be regarded as possessing rights and duties enforceable at law. Thus an individual may prosecute or be prosecuted for assault and a company can sue for breach of contract. They are able to do this because the law recognises them as 'legal persons' possessing the capacity to have and to maintain certain rights, and being subject to perform specific duties. (...) In municipal law individuals, limited companies and public corporations are recognized as each possessing a distinct legal personality, the terms of which are circumscribed by the relevant legislation\" (Shaw MN: International Law. Sixth Edition. Cambridge University Press, Cambridge, 2008). We hold that Shaw's position is ontological more prolific since it not only allows to explain how groups of individuals become recognized as unities at law, but also how different individuals can hold different legal personality roles (always against the context of one legal system). The latter will proof useful when dealing with the representing comatous patients or minorsat law in ontologies." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obo basic subset ontology module" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://owlcollab.github.io/oboformat/doc/obo-syntax.html#6.2" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Malcolm N. Shaw: International Law. Cambridge University Press, Cambridge, 2008." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000019", - "lbl" : "ontology module subsetted by OWL profile", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000039", + "lbl" : "smoker role", "type" : "CLASS", "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ontology module subsetted by OWL profile" - } ] + "definition" : { + "val" : "A role that inheres in an organism and is realized by habitually smoking tobacco products." + } } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000020", - "lbl" : "EL++ ontology module", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "EL++ ontology module" - } ] - } + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000040", + "lbl" : "intravenous drug user", + "type" : "CLASS" }, { - "id" : "http://purl.obolibrary.org/obo/MF_0000030", - "lbl" : "representation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000041", + "lbl" : "obsolete intergovernmental organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A dependent continuant which is about a portion of reality." + "val" : "an intergovernmental organization that has at least three member states, that has activies in at least three states, and that is unified by some formal intergovernmental agreement" }, + "comments" : [ "examples:\nNorth American Free Trade Argreement [NAFTA] , Universal Postal Union [UPU], Oragnaization of American States [OAS], World Bank), Organization of Petroleum exporting countries [OPEC] United Nations [UN[, The World Trade Organization [WTO], The World Health Organization [WHO], UNICEF" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "intergovernmental organization" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.jbiomedsem.com/content/1/1/10" - } ] + "val" : "\"IGOs are organizations whose memebers include at lesat three states, that have activities in several states, and whose members are held together by a formal intergovernmental agreement ... These organizations range in size from three members (North American Free Trade Argreement [NAFTA]) to more than 190 memembers (Universal Postal Union (UPU)]. Memebers may come from primarily one georgraphic regioni (Oragnaization of American States [OAS]) or from all geographic regions (World Bank). although soem IGOs are designed to achieve a single purpose (Organization of Petroleum exporting countries [OPEC]), others have been developed for multiple tasks (United Nations [UN}). ... IGOs are recognized subjects of international law with separate standing fromt heir member states.\" Karns and Mingst I(2004) p. 7" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Katrina Donovan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/MF_0000031", - "lbl" : "cognitive representation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000042", + "lbl" : "obsolete nongovernmental organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A representation which specifically depends on an anatomical structure in the cognitive system of an organism." + "val" : "a geopolitical organization that is voluntary and private, whose members are individual persons or organizations that come together to acheive a common purpose." }, + "comments" : [ "Examples:\nInternaltion Federation of Red Cross and Red Crescent Societies, Oxfam, CARE, Doctors Without Borders, World Wildlife Fund, Transparency International, Human Rights Watch, Amnesty International, and Save the Children." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "nongovernmental organizations" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.jbiomedsem.com/content/1/1/10" - } ] + "val" : "NGOs are private voluntary organizations whose members are individuals or associations that come together to acheive a common purpose. Some organizations are formed to advocate a particular cause such as human rights, peace, or envirnomental projetion. Others are established to provide services such as disaster relief, humantarian aid in war-torn socieities, or development assistance. ... National level groups are often called interest or pressure groups, and many of them are now linked to counterpart groups in other countries through transnational networks or federations. International NGOs, like IGOs, may draw their members from one region or several regions, and they may have very specific functions or be multi-functional.\n\nKarns and Mingst (2004) p. 10f." + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Katrina Donovan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/NCBITaxon_9606", - "lbl" : "Homo sapiens", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000043", + "lbl" : "obsolete private governance organizations", "type" : "CLASS", "meta" : { + "comments" : [ "Examples: private bond-rating agencies such as Moody's Investors Service, International Chamber of Commerce, Worldwide Responsible Apparel Manufacturing Principles, Forest Stewardship" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "Homo sapiens" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "human being" + "val" : "private governance organizations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/ncbitaxon.owl" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "\"Although the very meaning of the term is controversial, it involves authoritative decsionmaking in areas that once were part of national legal frameworks, the government, the sovereign state, or the public sector.\"\n\nKarns and Mingst (2004) p. 14." + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Katrina Donovan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OAE_0000002", - "lbl" : "medical intervention", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000044", + "lbl" : "obsolete governmental organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "medical intervention is a planned process that has the goal of diagnosing, preventing or relieving illness or injury." + "val" : "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii). \n\nNote: this definition was taken over from \"geopolitical organization\"." }, + "comments" : [ "IMPORTANT: The label \"geopolitical organization\" was previously used for OMRSE_00000044 (governmental organization). \"geopoli organization\" is a label for a new and different class." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The act of intervening, interfering or interceding with the intent of modifying the outcome. In medicine, an intervention is usually undertaken to help treat or cure a condition. For example, \"Acupuncture as a therapeutic intervention is widely practiced in the United States,\" \nReference:\nhttp://www.medterms.com/script/main/art.asp?articlekey=34214 . Some interventions can be used for diagnosis. " - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "YH" + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://wiki.answers.com/Q/What_is_medical_intervention" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "governmental organization" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OAE_0000067", - "lbl" : "surgery", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000045", + "lbl" : "obsolete sovereign state", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Surgery is a medical procedure that uses operative manual and instrumental techniques on a patient to investigate and/or treat a pathological condition such as disease or injury, to help improve bodily function or appearance. The key difference between a surgery and a general procedure is the need for an incision. Making an incision, or cutting into the skin to gain access to the body’s deeper tissues or organs, is a defining characteristic of surgery." + "val" : "A governmental organization with a defined territory on which it exercises internal and external sovereignty, a permanent population, a government, and the capacity to enter into relations with other sovereign states." }, + "comments" : [ "", "Per Wikipedia, the word 'nation' does not always refer to soverign states. For example, the \"nation of Islam\"." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "YH, SS" + "val" : "William R. Hogan" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "surgical procedure" + "val" : "nation" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Surgery" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "nation state" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "sovereign state" }, { - "pred" : "http://purl.obolibrary.org/obo/OAE_0004334", - "val" : "10042609" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Sovereign_state" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OAE_0002807", - "lbl" : "medical procedure", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000046", + "lbl" : "obsolete subnational entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a medical intervention that refers to any series of pre-defined steps that should be followed to achieve a desired result." + "val" : "a governmental organization that has a local, regional, or territorial government that recognizes a sovereign state as its higher political authority" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "YH, SS" + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "subnational entity" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OAE_0004334", - "lbl" : "has_MedDRA_id", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OBIB_0000667", - "lbl" : "survey data", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000047", + "lbl" : "obsolete supranational entity", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A data item that contains the outcome of a survey." - }, + "comments" : [ "e.g., the EU" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alice Nzinga" + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "supranational entity" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OBIB_0000701", - "lbl" : "survey plan specification", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000048", + "lbl" : "material entity role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000049", + "lbl" : "organism role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000050", + "lbl" : "Homo sapiens role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000051", + "lbl" : "organization role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000052", + "lbl" : "hospital function", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A plan specification that is realized by process of gathering information (e.g. by asking questions)." + "val" : "A function inhering in a material entity that, if realized, is realized by the material entity being the site at which inpatient and outpatient healthcare is provided to a patient population." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alice Nzinga" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBIB_0000710", - "lbl" : "survey execution", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000053", + "lbl" : "school function", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that realizes the concretization of a survey to generate an output(survey data.)" - } + "val" : "A function inhering in a material entity that, if realized, is realized by that material entity being the site at which formal education is provided to a student population." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000011", - "lbl" : "planned process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000054", + "lbl" : "hospital role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A process that realizes a plan which is the concretization of a plan specification." + "val" : "A healthcare provider role that inheres in an organization and is realized by providing inpatient care." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "planned process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "planned process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Injecting mice with a vaccine in order to test its efficacy" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some \nobjectives is a planned process." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Bjoern Peters" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "branch derived" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "6/11/9: Edited at workshop. Used to include: is initiated by an agent" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000066", - "lbl" : "investigation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000055", + "lbl" : "school role", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s)." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "investigation" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "An organization social role that inheres in an organization and is realized by providing formal education to students." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000245", - "lbl" : "organization", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000056", + "lbl" : "hospital organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organization is a continuant entity which can play roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members." + "val" : "An organization that is the bearer of a hospital role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "organization" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "PMID: 16353909.AAPS J. 2005 Sep 22;7(2):E274-80. Review. The joint food and agriculture organization of the United Nations/World Health Organization Expert Committee on Food Additives and its role in the evaluation of the safety of veterinary drug residues in foods." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BP: The definition summarizes long email discussions on the OBI developer, roles, biomaterial and denrie branches. It leaves open if an organization is a material entity or a dependent continuant, as no consensus was reached on that. The current placement as material is therefore temporary, in order to move forward with development. Here is the entire email summary, on which the definition is based:\n\n1) there are organization_member_roles (president, treasurer, branch\neditor), with individual persons as bearers\n\n2) there are organization_roles (employer, owner, vendor, patent holder)\n\n3) an organization has a charter / rules / bylaws, which specify what roles\nthere are, how they should be realized, and how to modify the\ncharter/rules/bylaws themselves.\n\nIt is debatable what the organization itself is (some kind of dependent\ncontinuant or an aggregate of people). This also determines who/what the\nbearer of organization_roles' are. My personal favorite is still to define\norganization as a kind of 'legal entity', but thinking it through leads to\nall kinds of questions that are clearly outside the scope of OBI.\n\nInterestingly enough, it does not seem to matter much where we place\norganization itself, as long as we can subclass it (University, Corporation,\nGovernment Agency, Hospital), instantiate it (Affymetrix, NCBI, NIH, ISO,\nW3C, University of Oklahoma), and have it play roles.\n\nThis leads to my proposal: We define organization through the statements 1 -\n3 above, but without an 'is a' statement for now. We can leave it in its\ncurrent place in the is_a hierarchy (material entity) or move it up to\n'continuant'. We leave further clarifications to BFO, and close this issue\nfor now." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Philippe Rocca-Serra" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Susanna Sansone" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP: OBI" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000293", - "lbl" : "has_specified_input", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000057", + "lbl" : "school organization", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The inverse property of is_specified_input_of" + "val" : "An organization that is the bearer of a school role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has_specified_input" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has_specified_input" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "see is_input_of example_of_usage" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Larry Hunter" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Coutot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000295", - "lbl" : "is_specified_input_of", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000299", - "lbl" : "has_specified_output", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000058", + "lbl" : "student role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The inverse property of is_specified_output_of" + "val" : "A human social role that, if realized, is realized by the process of formal education that the bearer undergoes." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has_specified_output" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has_specified_output" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" - }, { + "val" : "Mathias Brochhausen" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000059", + "lbl" : "nursery school role", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Larry Hunter" - }, { + "val" : "Mathias Brochhausen" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000060", + "lbl" : "primary school role", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000312", - "lbl" : "is_specified_output_of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000061", + "lbl" : "architectural structure", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of." + "val" : "A material entity that is a human made strcuture with firm connection between its foundation and the ground." }, + "comments" : [ "\"Building\" is a subclass of this. ", "This type of entity is referred to as \"Bauwerk\" or \"Bauliche Anlage\"." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is_specified_output_of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is_specified_output_of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Bjoern Peters" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://de.wikipedia.org/wiki/Bauwerk" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000471", - "lbl" : "study design execution", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000062", + "lbl" : "facility", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a planned process that carries out a study design" + "val" : "An architectural structure that bears some function." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study design execution" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000846", - "lbl" : "is member of organization", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000063", + "lbl" : "hospital facility", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization." + "val" : "A health care facility that bears the function to provide acute and intensive healthcare services and that is run by a hospital organization and is the bearer of a hospital function." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is member of organization" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/10/01 Alan Ruttenberg. Barry prefers generic is-member-of. Question of what the range should be. For now organization. Is organization a population? Would the same relation be used to record members of a population" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "JZ: Discussed on May 7, 2012 OBI dev call. Bjoern points out that we need to allow for organizations to be members of organizations. And agreed by the other OBI developers. So, human and organization were specified in 'Domains'. The textual definition was updated based on it." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Helen Parkinson" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Helen Parkinson" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" + "val" : "William Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0001688", - "lbl" : "has organization member", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000064", + "lbl" : "school facility", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relating an organization to a legal person or organization." + "val" : "A facility that is run by a school organization and is the bearer of a school function." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has organization member" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "See tracker:\nhttps://sourceforge.net/tracker/index.php?func=detail&aid=3512902&group_id=177891&atid=886178" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person: Jie Zheng" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0100026", - "lbl" : "organism", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000065", + "lbl" : "secondary school role", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "organism" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "animal" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "fungus" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "plant" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "virus" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000121" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "13-02-2009:\nOBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus.\nThis issue is outside the scope of OBI." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: OBI Biomaterial Branch" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Organism" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0200000", - "lbl" : "data transformation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000066", + "lbl" : "pediatric trauma patient role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that produces output data from input data." + "val" : "A trauma patient role that inheres in a homo sapiens who is under the age of 15 years." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "data transformation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The application of a clustering protocol to microarray data or the application of a statistical testing method on a primary data set to determine a p-value." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Elisabetta Manduchi" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Helen Parkinson" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "pediatric trauma patient" }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "The following definition for 'pediatric trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\n\"A trauma patient who is under the age of 15 years.\"" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000067", + "lbl" : "injured patient role", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A patient role that inheres an organism suffering one or more injuries." + }, + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "James Malone" + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "injured patient" }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "The following definition for 'injured patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering one or more injuries." + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000069", + "lbl" : "burn patient role", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A patient role that inheres in an organism suffering a thermal, electrical, chemical or radiation burn." + }, + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Philippe Rocca-Serra" + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Richard Scheuermann" + "val" : "The following definition for 'burn patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering a thermal, electrical, chemical or radiation burn." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Ryan Brinkman" - }, { + "val" : "burn patient" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000072", + "lbl" : "physiatrist role", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A physician role that is created by training and certification in rehabilitation/physical medicine and that is realized by the provision of or supervising of the provision of rehabilitation or physical therapy to a patient." + }, + "comments" : [ "Definition updated May 5, 2016. Original definitions was, a health care role borne by a human being and realized by training and certification in rehabilitation medicine." ], + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Tina Hernandez-Boussard" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data analysis" + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data processing" + "val" : "physiatrist" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Branch editors" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "val" : "The following definition for 'physiatrist' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA physician with training and certification in rehabilitation/physical medicine." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0500000", - "lbl" : "study design", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000073", + "lbl" : "trauma patient role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution." + "val" : "A patient role that inheres in an organism with some non-superficial traumatic injury. The role is realized by admision to a hospital, transfer from one hospital to another for the purpose of trauma care, or has death as a result of the traumatic injury." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study design" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "trauma patient" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "The following definition for 'trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient sustaining an injury who has been admitted to the hospital, transferred from one hospital to another for the purpose of trauma care, or has died as a result of the traumatic injury." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0600052", - "lbl" : "dialysis", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000074", + "lbl" : "housing unit", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a protocol application that uses diffusion through a semi-permeable membrane to separate an input material into two fractions of different composition" + "val" : "A material entity that has as parts one or more sites large enough to contain humans, has as part one or more material entities that separates it from other sites, and bears a residence function." }, + "comments" : [ "Housing units are individuated by their residence functions." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "dialysis" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the use of a dialysis bag of select pore size to remove salt from collagen isolated from mouse cartilage" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Kevin Clancy" + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBI branch derived" + "val" : "https://github.com/ufbmi/OMRSE/wiki/Housing-unit-and-Household" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OGMS_0000097", - "lbl" : "health care encounter", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000075", + "lbl" : "residence function", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A temporally-connected health care process that has as participants an organization or person realizing the health care provider role and a person realizing the patient role. The health care provider role and patient are realized during the health care encounter" + "val" : "A function that inheres in a material entity and, if realized, is realized by protecting persons and their possessions from weather and by some person or group of persons habitually sleeping in at least one site that is contained by that material entity." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Albert Goldfain" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "creation date: 2011-02-21T09:57:44Z" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OGMS_0000100", - "lbl" : "inpatient encounter", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000076", + "lbl" : "household", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care encounter involving a patient who has been admitted to a health care facility and remains in a hospital facility for at least one night." + "val" : "A human or collection of humans that occupies a housing unit by storing their possessions there and habitually sleeping there thereby participating in the realization of that housing unit's residence function." }, + "comments" : [ "Note in OMRSE it is the housing unit, not the people living there, that are the bearers of a \"residence function\". Note the distinction between being a residence and a resident.", "Note that it is not possible in OWL 2, at least that we have yet found, to say that the housing unit in which the process occurs is the same one that is the bearer of the residence function (that the process realizes)." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Albert Goldfain" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "creation date: 2011-02-21T09:57:44Z" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OGMS_0000102", - "lbl" : "injury", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000077", + "lbl" : "job role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A disorder that involves some structural damage that is immediately caused by a catastrophic external force." + "val" : "A role in human social processes that, if realized, is realized when the bearer provides labor or services in exchange for a wage or salary as specified by some deontic declaration." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "At the scale of organism (as opposed to the cellular scale or the population scale), an injury is typically the result of a catastrophic event. Consider the implications of making 'injury' a subtype of 'disorder'.\n\nNote: Adopted subtype of disorder, and injury can occur at the scale of organism down to cellular level." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Albert Goldfain\nSagar Jain" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/ca0ad373f27774c5\n\nOGMS call adoption- 16 SEPT 2015\nhttps://docs.google.com/document/d/1iiV1-fTS7BUUSzDw3N_Afx42698YWf54-FOTY2NkAxo/edit" + "val" : "Amanda hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "creation date: 2011-09-20T09:57:44Z\nedited date: 30 SEPT 2015" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "employee" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000008", - "lbl" : "obsolete owns", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000078", + "lbl" : "workplace facility", + "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000732" - } ], - "deprecated" : true + "val" : "Amanda Hicks" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000009", - "lbl" : "obsolete administrates", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000079", + "lbl" : "workplace function", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "a function inhering in a material entity that, if realized, is realized by that material entity being the site where the work of some organization is carried out" + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000733" - } ], - "deprecated" : true + "val" : "Amanda Hicks" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000048", - "lbl" : "obsolete is owned by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000081", + "lbl" : "US census householder role", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A US Census householder role is a human social role that, if realized, is realized by that person being a member of a household and either owning or renting the housing unit in which that household resides and being designated as the householder. If there is only one member of the household who owns or rents the housing unit, that person is designated the householder by default." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Reinach, A. S�mtliche Werke. Texkritische Ausgabe, M�nchen: Philosophia Verlag, 1989, p.189-204." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000735" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.census.gov/cps/about/cpsdef.html\n\nlast accessed on June 30, 2015" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000060", - "lbl" : "obsolete survey data", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000082", + "lbl" : "US Census reference person role", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A US cenus reference person role is a human social role that inheres in a Homo sapiens who is a member of a household and is realized by other persons in the household being recorded in the US census in relation to that person." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alice Nzinga" + "val" : "Amanda Hicks" }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.census.gov/cps/about/cpsdef.html\n\nlast accessed June 30, 2015" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000083", + "lbl" : "obsolete OMB ethnic identity datum", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An ethnic identity datum that is the output of an ethnic identification process that uses OMB terminology for ethnicity or terminology that is mapped the OMB ethnicity terms." + }, + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000667" + "val" : "OMB ethnic identity information content entity" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0001025", - "lbl" : "obsolete survey plan specification", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000084", + "lbl" : "enrollment end date", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000085", + "lbl" : "obsolete socio-legal human social role", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alice Nzinga" + "val" : "A role that concretizes a socio-lega generically dependent continuant" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000701" + "val" : "Amanda Hicks" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0001035", - "lbl" : "obsolete survey execution", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000086", + "lbl" : "human role within an organization", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A human social role that is created by a deontic declaration performed by an organization." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000710" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "human organizational role" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMO_0001001", - "lbl" : "logical characteristic of object property", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000087", + "lbl" : "employer role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "This is an annotation used on an object property to indicate a logical characterstic beyond what is possible in OWL." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBO Operations call" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "http://orcid.org/0000-0001-5208-3432" - } ] + "val" : "a role in human social processes that is realized when the bearer provides a wage or salary in exchange for some labour or services as specified by some declaration" + } } }, { - "id" : "http://purl.obolibrary.org/obo/OMO_0002000", - "lbl" : "defined by construct", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000088", + "lbl" : "age measurement datum", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000089", + "lbl" : "contract", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Links an annotation property to a SPARQL CONSTRUCT query which is meant to provide semantics for a shortcut relation." + "val" : "A document that records a legally binding agreement between two or more parties." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "'part disjoint with' 'defined by construct' \"\"\"\n PREFIX owl: \n PREFIX : 10 tobacco cigerettes a day or the equivalent in other tobacco products." + } } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000066", - "lbl" : "pediatric trauma patient role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000188", + "lbl" : "answer set", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000189", + "lbl" : "question text", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000190", + "lbl" : "option as member of some answer set", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000191", + "lbl" : "residential facility", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A trauma patient role that inheres in a homo sapiens who is under the age of 15 years." + "val" : "A facility that has at least one housing unit as part in which a person or persons live" }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "residential facility" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Emma Norris" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "pediatric trauma patient" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William Hogan" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "The following definition for 'pediatric trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\n\"A trauma patient who is under the age of 15 years.\"" + "val" : "Modified version of definition provided by Human Behaviour Change Project" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000067", - "lbl" : "injured patient role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000192", + "lbl" : "obsolete communication", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A patient role that inheres an organism suffering one or more injuries." + "val" : "A process in which some participant shares some information content entity about some state of that participant with some other participant." }, + "comments" : [ "The term 'participant' in the definition need not refer to a human agent." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "injured patient" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "The following definition for 'injured patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering one or more injuries." - } ] + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000068", - "lbl" : "is administered by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000069", - "lbl" : "burn patient role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000193", + "lbl" : "obsolete linguistic competence", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A patient role that inheres in an organism suffering a thermal, electrical, chemical or radiation burn." + "val" : "A disposition inhering in a material entity that, if realized, is realized by that material entity’s communicating via some linguistic concretization." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "The following definition for 'burn patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering a thermal, electrical, chemical or radiation burn." + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "burn patient" - } ] + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000070", - "lbl" : "is enrolled in school", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000071", - "lbl" : "is admitted to hospital", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000072", - "lbl" : "physiatrist role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000194", + "lbl" : "obsolete language", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A physician role that is created by training and certification in rehabilitation/physical medicine and that is realized by the provision of or supervising of the provision of rehabilitation or physical therapy to a patient." + "val" : "A disposition inhering in a linguistic community that (i) is a maximal aggregate of communicatively compatible linguistic competences, and (ii) if realized, is realized by any and all realizations of those linguistic competences." }, - "comments" : [ "Definition updated May 5, 2016. Original definitions was, a health care role borne by a human being and realized by training and certification in rehabilitation medicine." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "physiatrist" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "The following definition for 'physiatrist' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA physician with training and certification in rehabilitation/physical medicine." - } ] + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000073", - "lbl" : "trauma patient role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000195", + "lbl" : "linguistic community", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A patient role that inheres in an organism with some non-superficial traumatic injury. The role is realized by admision to a hospital, transfer from one hospital to another for the purpose of trauma care, or has death as a result of the traumatic injury." + "val" : "A maximal aggregate of material entities such that each member bears a linguistic competence for the same language." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "trauma patient" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "The following definition for 'trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient sustaining an injury who has been admitted to the hospital, transferred from one hospital to another for the purpose of trauma care, or has died as a result of the traumatic injury." + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000074", - "lbl" : "housing unit", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000196", + "lbl" : "obsolete expression of preferred language", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A material entity that has as parts one or more sites large enough to contain humans, has as part one or more material entities that separates it from other sites, and bears a residence function." + "val" : "A communication in which some participant states a preference for some communicative process to be in a certain language, and that has a concretization of a preferred language information content entity as its specified output." }, - "comments" : [ "Housing units are individuated by their residence functions." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/ufbmi/OMRSE/wiki/Housing-unit-and-Household" - } ] + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000075", - "lbl" : "residence function", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000197", + "lbl" : "obsolete preferred language information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A function that inheres in a material entity and, if realized, is realized by protecting persons and their possessions from weather and by some person or group of persons habitually sleeping in at least one site that is contained by that material entity." + "val" : "An information content entity that (i) is about some person, some language, and some linguistic competence; and (ii) conveys the language with which that person prefers to communicate within some given context." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" - } ] + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000076", - "lbl" : "household", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000198", + "lbl" : "information content entity-request process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A human or collection of humans that occupies a housing unit by storing their possessions there and habitually sleeping there thereby participating in the realization of that housing unit's residence function." + "val" : "a communication in which some participant requests of some other participant an information content entity about some portion of reality" }, - "comments" : [ "Note in OMRSE it is the housing unit, not the people living there, that are the bearers of a \"residence function\". Note the distinction between being a residence and a resident.", "Note that it is not possible in OWL 2, at least that we have yet found, to say that the housing unit in which the process occurs is the same one that is the bearer of the residence function (that the process realizes)." ], + "comments" : [ "As with the parent class, 'participant' in the definition need not refer to a human agent.", "The medium and grammatical form are irrelevant. For example, the request may be written or spoken, and while it may be in the form of a question, it need not be." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000077", - "lbl" : "job role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000199", + "lbl" : "information content entity request about ethnic identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role in human social processes that, if realized, is realized when the bearer provides labor or services in exchange for a wage or salary as specified by some deontic declaration." + "val" : "an information content entity-request process in which some participant requests of some other participant an information content entity that indicates the ethnic identity of that other participant" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda hicks" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "employee" + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000078", - "lbl" : "workplace facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000200", + "lbl" : "information content entity request about racial identity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "an information content entity-request process in which some participant requests of some other participant an information content entity that indicates the racial identity of that other participant" + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000079", - "lbl" : "workplace function", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000201", + "lbl" : "admission process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a function inhering in a material entity that, if realized, is realized by that material entity being the site where the work of some organization is carried out" + "val" : "A deontic document act in which a patient is registered with a health care provider for the purpose of receiving care in an inpatient encounter." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", @@ -12070,1204 +11000,1471 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000080", - "lbl" : "U.S. Census PUMS serial number", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The PUMS serial number assigned to a housing unit, which is only unique within each state, and which explicitly links the housing unit record with person records in PUMS data." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000081", - "lbl" : "US census householder role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000202", + "lbl" : "cancer summary staging", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A US Census householder role is a human social role that, if realized, is realized by that person being a member of a household and either owning or renting the housing unit in which that household resides and being designated as the householder. If there is only one member of the household who owns or rents the housing unit, that person is designated the householder by default." + "val" : "A planned process of determining the extent to which a cancer disease has developed by growing and spreading throughout an organism." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "cancer summary staging" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The cancer summary staging performed on patient John Doe's clinical picture." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.census.gov/cps/about/cpsdef.html\n\nlast accessed on June 30, 2015" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "tumor summary staging" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000082", - "lbl" : "US Census reference person role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000203", + "lbl" : "cancer summary staging code", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A US cenus reference person role is a human social role that inheres in a Homo sapiens who is a member of a household and is realized by other persons in the household being recorded in the US census in relation to that person." + "val" : "An information content entity that is the specified output of cancer summary staging." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "cancer summary staging code" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The cancer summary staging code that is the outcome of the cancer summary staging performed on patient John Doe's clinical picture." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.census.gov/cps/about/cpsdef.html\n\nlast accessed June 30, 2015" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "tumor summary staging code" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000083", - "lbl" : "obsolete OMB ethnic identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000204", + "lbl" : "social identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ethnic identity datum that is the output of an ethnic identification process that uses OMB terminology for ethnicity or terminology that is mapped the OMB ethnicity terms." + "val" : "An information content entity that is intended to be a truthful statement about some person and whether that person identifies as some particular aspect of social identity—such as a gender, an ethnicity, a race, or a sexual orientation—where the sense of identifying may correspond to either (i) an aspect of one’s cognitive representation of oneself, (ii) how one prefers to be regarded by others within some social context, or (iii) how one chooses to present oneself to others within some social context." }, + "comments" : [ "We include (i)-(iii) to acknowledge that there are different senses of \"identify\" that are relevant here, and that we may not always be sure which sense the person concretizing the social identity information content entity intended. While (i) concerns how one thinks of oneself, (ii) and (iii) are more focused on one's interactions with others. Importantly, some choose not to share with others how they identify in the sense of (i). For example, one can consider oneself to be some certain gender without either wanting others to know or choosing to present oneself in a corresponding way. We distinguish (ii) and (iii) because one can prefer to be regarded some certain way without attempting to present oneself in any corresponding way." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB ethnic identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000084", - "lbl" : "enrollment end date", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000085", - "lbl" : "obsolete socio-legal human social role", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "A role that concretizes a socio-lega generically dependent continuant" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000086", - "lbl" : "human role within an organization", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000205", + "lbl" : "ethnic identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A human social role that is created by a deontic declaration performed by an organization." + "val" : "A social identity information content entity that is about whether some person identifies as some ethnicity." }, + "comments" : [ "Ethnicity is separate from but related to racial identity. It refers more to identifying with a particular culture than with individuals similar in physical appearance. It includes things like Hispanic ethnicity (which spans many nations) and national cultural identities like Irish and ethnic groups within nations such as Catalan and Armenian." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "human organizational role" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000087", - "lbl" : "employer role", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "a role in human social processes that is realized when the bearer provides a wage or salary in exchange for some labour or services as specified by some declaration" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000088", - "lbl" : "age measurement datum", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000089", - "lbl" : "contract", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000206", + "lbl" : "OMB ethnic identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document that records a legally binding agreement between two or more parties." + "val" : "An ethnic identity information content entity that uses OMB terminology for ethnicity or terminology that is strictly mapped onto the OMB ethnicity terms." }, + "comments" : [ "OMB dichotomizes ethnicity into Hispanic or Latino and Not Hispanic or Latino, and ignores all other forms of ethnicity." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A contract is a document that is the specified output of a legally binding document act and records a legally binding agreement between two or more parties." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000090", - "lbl" : "indemnity contract", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000207", + "lbl" : "OMB Hispanic or Latino identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A contract by which one party secures the other against pecuniary loss by payment of a sum of money if a specified event occurs." + "val" : "An OMB ethnic identity information content entity that is about some person's identifying as Hispanic or Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." }, + "comments" : [ "It comprehends people of Portuguese culture or origin in Brazil." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000091", - "lbl" : "insurance policy", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000208", + "lbl" : "OMB not Hispanic or Latino identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An indemnity contract that distributes risk among a group of people" + "val" : "An OMB ethnic identity information content entity that is about some person's identifying as neither Hispanic nor Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000092", - "lbl" : "insured party role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000209", + "lbl" : "gender identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that inheres in an organism that is able to receive benefits from an insurance policy. The role, if realized, is realized by receiving benefits that are covered by the insurance policy." + "val" : "A social identity information content entity that is about whether some person identifies as some gender." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000093", - "lbl" : "insurance organization", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000210", + "lbl" : "female gender identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organization that secures a group of people against pecuniary loss by payment of a sum of money if a a specified event occurs." + "val" : "A gender identity information content entity that is about some person's identifying as female in gender." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000094", - "lbl" : "policy holder role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000211", + "lbl" : "male gender identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An insured party role that inheres in a person who participates in the creation of the insurance contract and is eligible to receive benefits as specified by the insurance contract." + "val" : "A gender identity information content entity that is about some person's identifying as male in gender." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000095", - "lbl" : "payer role", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000096", - "lbl" : "party to an insurance policy", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000097", - "lbl" : "enrollment start date", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000098", - "lbl" : "obsolete racial identity datum", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A racial identity is an information content entity that is the output of some racial identitification process and is intended to be a truthful statement about the genetic or cultural race of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "racial identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000099", - "lbl" : "racial identification process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000100", - "lbl" : "obsolete ethnic identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000212", + "lbl" : "non-binary identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ethnic identity datum is an information content entity that is the output of some ethnic identitification process and is intended to be a truthful statement about the cultural or national heritage of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." + "val" : "A gender identity information content entity that is about some person's identifying as non-binary in gender." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "ethnic identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000101", - "lbl" : "ethnic identification process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000102", - "lbl" : "health care facility", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "A facility bearing the function to provide healthcare and that is administered by a health care organization for the purpose of providing health care to a patient or patient population." + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000103", - "lbl" : "US Census unemployed role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000213", + "lbl" : "racial identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A human social role that inheres in a human who is legally eligible to work, is conferred by the U.S. Census Bureau, and is realized by the bearer not working and either making active efforts to find employment in the four weeks prior to the reference week or waiting to be recalled from temporary layoff." + "val" : "A social identity information content entity that is about whether some person identifies as some race." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000104", - "lbl" : "hospice facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000214", + "lbl" : "OMB racial identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care facility that bears a function to provide healthcare to the sick or terminally ill" + "val" : "A racial identity information content entity that uses OMB terminology and definitions for race or terminology that is strictly mapped onto the OMB race terms." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000105", - "lbl" : "skilled nursing facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000215", + "lbl" : "OMB American Indian or Alaska Native identity information content entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An OMB racial identity information content entity that is about some person's identifying as American Indian or Alaska Native, which is intended to mean having origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." + }, + "comments" : [ "This definition corresponds to that used by OMB. It is worth noting that the OMB definition from which this one is derived is problematic, in that it implies that one's race cannot be Native American or Alaskan Native unless one maintains tribal affiliations or community attachment." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000106", - "lbl" : "rehabilitation facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000216", + "lbl" : "OMB Asian identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A facility to assist in physical or addiction recovery" + "val" : "An OMB racial identity information content entity that is about some person's identifying as Asian, which is intended to mean having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000107", - "lbl" : "nursing home facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000217", + "lbl" : "OMB black or African American identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A facility that is run by a nursing home organization and is the bearer of a nursing home function." + "val" : "An OMB racial identity information content entity that is about some person's identifying as black or African American which is intended to mean having origins in any of the black racial groups of Africa." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000108", - "lbl" : "residential health care facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000218", + "lbl" : "OMB Native Hawaiian or other Pacific Islander identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A community living health care facility that provides health care services in a home-like setting" + "val" : "An OMB racial identity information content entity that is about some person's identifying as Native Hawaiian or other Pacific Islander, which is intended to mean having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000109", - "lbl" : "overnight dialysis facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000219", + "lbl" : "OMB white identity information content entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An OMB racial identity information content entity that is about some person's identifying as white which is intended to mean having origins in any of the original peoples of Europe, the Middle East, or North Africa." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000110", - "lbl" : "outpatient clinic facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000220", + "lbl" : "sexual orientation identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care facility that bears a function to provide low intensity healthcare services to patients on a short-term basis, with patients leaving on the same date as arriving (i.e., without them staying overnight)" + "val" : "A social identity information content entity that is about whether some person identifies as having some sexual orientation." }, - "comments" : [ "Broadened from treatment to healthcare services generally. \"Low intensity\" is not defined at the moment, but is needed to differentiate from same-day surgery centers or observation stays in hospitals that last <24 hours. The idea is that few invasive procedures are performed, and the ones that are invasive are not typically much worse than a blood draw. Maybe bone marrow biopsy is as aggressive as it gets. I wonder if hematologists do that on an outpatient basis." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000111", - "lbl" : "physician office facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000221", + "lbl" : "residence ZIP code information content entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An information content entity that is about some geographical region, in which a postal delivery route denoted by a particular ZIP code is realized, and that is the specified output of a disclosure of residence." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000112", - "lbl" : "ambulatory surgery facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000222", + "lbl" : "debt obligation", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A directive information entity that prescribes that something will be transferred from some human or organization that is the bearer of a duty holder role to another human or organization that is the bearer of a claimant role." + }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "debt obligation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Three Arrows Capital declared bankruptcy on July 1, 2022 after defaulting on a $665 million debt obligation owed to Voyager Digital." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000113", - "lbl" : "urgent care facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000223", + "lbl" : "disclosure of residence", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A social act that creates an information content entity that is about some geographical region in which a human being dwells." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000114", - "lbl" : "emergency department facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000224", + "lbl" : "electronic health record data set", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care facility that bears a function to provide emergency healthcare services and the acute care of patients who present without prior appointment, having arrived either by their own means or by ambulance" + "val" : "A data set whose members are obtained from one or more electronic health records." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "EHR data set" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Adapted from Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brocchausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000115", - "lbl" : "urgent care function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000116", - "lbl" : "ambulatory surgery function", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000225", + "lbl" : "health care claim data set", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A data set whose members are the specified output of some process of adjudicating health care insurance claims (and whose inputs are at least partly some members of a health care billing data set)." + }, + "comments" : [ "It covers prescription claims because pharmacies bill insurance companies for patients’ prescriptions via submitting insurance claims.", "The insurance claim is submitted to the insurance company by either the patient or the provider. It is not necessarily always the provider, although in the United States, it typically is.", "The outcome of the adjudication of a claim in the claims dataset could be favorable or unfavorable for the healthcare provider, the patient, or both. The idea is just that they’ve been adjudicated, one way or the other (or anything in between if that’s a possibility).", "The reason we say billing data are only part of the input is because we are not conflating the insurance claim with the bill. It is our understanding that the provider’s bill of services is either part of the claim or “attached” to it in some manner, but doesn’t constitute the entire claim itself.", "The sources of these data are held by insurers or other health plan providers." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brocchausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000117", - "lbl" : "hospice function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000118", - "lbl" : "emergency department function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000119", - "lbl" : "physician office function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000120", - "lbl" : "outpatient clinic function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000121", - "lbl" : "overnight dialysis function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000122", - "lbl" : "rehabilitation function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000123", - "lbl" : "skilled nursing function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000124", - "lbl" : "obsolete residential function", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000226", + "lbl" : "health care billing data set", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A data set whose members are obtained from billing-related data sources that (i) are generated by a health care organization as a result of internal administrative processes, and (ii) are about services rendered or materials used during some health care encounter." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "residence function (OMRSE:00000075)" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000125", - "lbl" : "nursing home function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000126", - "lbl" : "patient discharge", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000227", + "lbl" : "health care administrative process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic document act that concludes an inpatient encounter." + "val" : "A planned process (i) that is neither a health care process nor an ancillary health care process, and (ii) in which some employee of a health care organization manages, or helps to manage, the performance of tasks that realize the functions of that organization." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Recording data in an EHR. Financial tasks for a healthcare organization. Scheduling shifts for health care workers." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "discharge process" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000127", - "lbl" : "obsolete hispanic or latino identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000228", + "lbl" : "principal diagnosis-assignment process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB ethnic identity datum that indicates the person identified is of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." + "val" : "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB Hispanic or Latino identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000128", - "lbl" : "obsolete not hispanic or latino identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000229", + "lbl" : "secondary diagnosis-assignment process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB ethnic identity datum that indicates the person identified is not of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." + "val" : "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about an underlying condition that is distinct from the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB not Hispanic or Latino identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000129", - "lbl" : "US physician assistant role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000230", + "lbl" : "county smoking survey plan specification", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A human health care provider role that inheres in a human being that is created by state licensing and that is realized by taking patient histories, performing physical exams, diagnosing illnesses, developing treatment plans, ordering lab tests, prescribing medications, counselling and educating patients, suturing wounds, and assisting in surgery under the supervision of a physician or a surgeon." - } + "val" : "A survey plan specification that aims to collect information about the smoking behavior or lack thereof of a population on a county level. Concretization of a smoking survey plan that is stratified by county." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The Alachua county smoking survey plan specification." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jiang Bian" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000130", - "lbl" : "anesthesiologist role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000231", + "lbl" : "county smoking survey execution", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A physician role that inheres a human being and, if it is realized, is realized either by administering medication for the temporary general or local suppression of sensory or motor nerve function during some health care encounter or by making decisions independently of a supervising physician regarding the adminstration of such medication." - } + "val" : "A survey execution that realizes the concretization of a smoking survey plan specification that is stratified by county." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The Alachua county smoking survey execution." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jiang Bian" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000131", - "lbl" : "OMB racial identification process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000132", - "lbl" : "obsolete identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000232", + "lbl" : "county smoking survey data", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identity datum is an information content entity that is the output of some identitification process and is intended to be a truthful statement about a person's social identity. Unlike data items they are not necessilary contributed or acquired by a reliable method." + "val" : "Survey data that is the specified output of a county smoking survey execution." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "social identity information content entity" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The Alachua county smoking survey data." }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jiang Bian" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000133", - "lbl" : "obsolete gender identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000233", + "lbl" : "smoking rate calculation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gender identity is an information content entity that is the output of some gender identitification process and is intended to be a truthful statement about a person's subjective sense of their gender. Unlike data items they are not necessilary contributed or acquired by a reliable method." + "val" : "A data transformation that has data about the smoking status of a population as its specified input and a percentage or ratio of smokers in that population as a specified output." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "gender identity information content entity" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Calculating the Alachua County smoking rate from Alachua County smoking data." }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000134", - "lbl" : "identification process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000234", + "lbl" : "county smoking rate data", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A data item that is the specified output of a smoking rate calculation that has data about smoking behavior or lack there of on a county level." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The Alachua County smoking rate." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000135", - "lbl" : "gender identification process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000136", - "lbl" : "date", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "The only valid string values for this property are ISO 8601 formatted date strings in extended form. It is allowable specify only the year, e.g. '2016' but only when the 1D temporal region references the entire year. Ditto for month, e.g. 2016-04 is acceptable but only if it references the entire interval of that month." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000137", - "lbl" : "time of day", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000235", + "lbl" : "money", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A debt obligation between two parties that has part a scalar value specification and whose concretizations indicate that their bearers can be used in a financial transaction or payment of debt, or as a measure of the value of some entity in a financial valuation process or prospective financial valuation process." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "time" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "money" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Todd does not have enough money to buy more plants at the horticultural club's poinsettia sale." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000138", - "lbl" : "obsolete female gender identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000236", + "lbl" : "currency", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a gender identity datum resulting from a gender identification process in which ‘female’ is selected based on the participant's subjective sense of gender" + "val" : "A material entity that is the bearer of a concretization of money and is created by some governmental organization or on behalf of some governmental organization that has authorized its creation." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "currency" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "US currency is an accepted form of legal tender, not just in the United States, but in many countries around the world, such as El Salvador." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "female gender identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000139", - "lbl" : "surgeon role", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000140", - "lbl" : "neurosurgeon role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000237", + "lbl" : "exchange of ownership", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A surgeon role realized by its bearer using performing neurosurgery." - } + "val" : "A planned process whereby one agent (or active participant) or a group of agents transfer ownership of some property to another agent (or active participant) or group of agents in the process, who in return transfer ownership of some their property to the first agent (or active participant)." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "exchange of ownership" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Tom exchanged ownership of his computer for Tina's scooter." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "barter" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000141", - "lbl" : "obsolete male gender identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000238", + "lbl" : "financial transaction", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a gender identity datum resulting from a gender identification process in which ‘male’ is selected based on the participant's subjective sense of gender" + "val" : "A planned process whereby one participant partly or completely fulfills an obligation to another participant by transferring ownership of some other debt obligation, which is typically money." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "financial transaction" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Apple acquired semiconductors from Samsung in a financial transaction yesterday." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "monetary transaction" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "male gender identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000142", - "lbl" : "human traveling information", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000239", + "lbl" : "payment of debt", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is about human travel." + "val" : "A planned process whereby ownership of some entity of value is transferred by one participant to another to fulfill some obligation, on their behalf, after some service is performed or the ownership of some entity is exchanged." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/ufbmi/OMRSE/issues/79" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "payment of debt" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "I made a debt payment with my credit card company yesterday and no longer owe them money." }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000143", - "lbl" : "household identifier", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000240", + "lbl" : "financial valuation process", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A planned process that has as specified output some scalar measurement datum that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some other material entity." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "A symbol that denotes a specific household" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "financial valuation process" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The financial valuation of Ravi's car today determined that the car is worth $2000." }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000144", - "lbl" : "family identifier", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000241", + "lbl" : "prospective financial valuation process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A symbol that denotes a family." + "val" : "A planned process that has as specified output some predicted value that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some material entity at some point in the future." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "prospective financial valuation process" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The prospective valuation of my company's stock indicates strong optimism for our financial growth over the next few years." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000145", - "lbl" : "obsolete self-identity data item", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000242", + "lbl" : "intimate partnership", "type" : "CLASS", "meta" : { "definition" : { - "val" : "an identity datum that has been asserted by the person whom it is about" + "val" : "Relational quality inhering in persons by virtue of being each other’s spouse, boyfriend/girlfriend, dating partner, or ongoing sexual partner." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" - } ], - "deprecated" : true + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000146", - "lbl" : "employment process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000243", + "lbl" : "abusive behavior", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which the bearer of an employer role provides wages or salary to the bearer of an employee roll in fullfillment of the arrangements specified in some declaration" - } + "val" : "Behavior that is cruel, violent, demeaning, or invasive." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000147", - "lbl" : "pediatric surgeon role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000244", + "lbl" : "psychologically abusive behavior", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A surgeon role borne by a human being and that, if realized, is realized by its bearer using operative manual and instrumental techniques on preadult patients to investigate and/or treat a pathological condition such as disease or injury, to help improve bodily function or appearance or to repair unwanted ruptured areas." + "val" : "Abusive behavior in which the aggressor does or attempts to do the following: mentally or emotionally harm or exert control over another." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000148", - "lbl" : "adult foster home facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000245", + "lbl" : "physically abusive behavior", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a facility that is run by an adult foster home organization and is the bearer of an adult foster home organization" + "val" : "Abusive behavior in which the aggressor does or attempts to do the following: harm, restrain, or coerce another through physical force." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000149", - "lbl" : "adult foster home function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000150", - "lbl" : "community living health care facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000246", + "lbl" : "sexually abusive behavior", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a health care facility that also bears a residence function and thus one in which the patients are also residents of the facility" - } + "val" : "Abusive behavior in which the aggressor does or attempts to do the following: force or coerce another to participate in a sexual act to which the latter has not freely given consent." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000151", - "lbl" : "registered nurse role", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000152", - "lbl" : "skilled nursing encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000153", - "lbl" : "assistive care encounter", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000249", + "lbl" : "birth attendant role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "They include assistance with activities of daily living, assistance with instrumental activities of daily living, medication assistance, and health support\n\nhttp://ahca.myflorida.com/Medicaid/acs/index.shtml" + "val" : "A health care provider role that is realized in maintaining the health of a human being during their pregnancy and both them and the neonate during labor, delivery, and postpartum." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "skilled birth attendant role" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "https://orcid.org/0000-0001-6595-0902" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000154", - "lbl" : "assistance with activities of daily living care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000155", - "lbl" : "assistance with instrumental activities of daily living encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000156", - "lbl" : "medication assistance care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000157", - "lbl" : "assisted living facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000250", + "lbl" : "linguistic competence information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A facility that is run by an assisted living facility organization and is the bearer of an assisted living facility function." - } + "val" : "An information content entity that conveys that a particular person has a linguistic competence for a particular language" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Barry Smith" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jobst Landgrebe" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000158", - "lbl" : "assisted living function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000159", - "lbl" : "post-acute health care encounter", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000251", + "lbl" : "primary language information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "temporally located after some acute care encounter\nSomehow involves skilled nursing encounters" - } + "val" : "A linguistic competence information content entity that conveys the language is the one for which the person has their most proficient linguistic competence." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Barry Smith" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jobst Landgrebe" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000160", - "lbl" : "acute care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000161", - "lbl" : "leaving a health care facility after receiving care", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000252", + "lbl" : "language-at-home information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A process (1) where the active participant, who at the beginning of the process is located in a healthcare facility, exits the facility and no longer stands in a \"located in\" relationship to the facility and (2) is immediately preceded by a healthcare encounter in which the active participant also participated." + "val" : "A linguistic competence information content entity that conveys the person uses the language at home." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Barry Smith" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jobst Landgrebe" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000162", - "lbl" : "obsolete medical advice", - "type" : "CLASS", - "meta" : { - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000163", - "lbl" : "response to a question asking process", - "type" : "CLASS", - "meta" : { - "comments" : [ "Note that not all responses to a question asking process are answers. For example, a refusal to answer is not an answer. A refusal to answer is also not a specified output of the question asking process since it does not acheive the objective of asking the question, which is to get an answer." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000164", - "lbl" : "home health care organization", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000165", - "lbl" : "home health care function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000166", - "lbl" : "home health care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000167", - "lbl" : "provides service", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000168", - "lbl" : "obsolete questions asking process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000253", + "lbl" : "religious gathering", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A social act or aggregate of social acts that include some worship, prayer, or proselytizing." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OMRSE_00000198" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000169", - "lbl" : "palliative function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000170", - "lbl" : "palliative care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000171", - "lbl" : "hospice organization", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000172", - "lbl" : "health care function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000173", - "lbl" : "obsolete material information bearer of question text plus answer set", - "type" : "CLASS", - "meta" : { - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000174", - "lbl" : "refusal to answer datum", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000175", - "lbl" : "response to an identity question asking process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000176", - "lbl" : "obsolete identity question asking process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000254", + "lbl" : "hospital bed capacity data item", "type" : "CLASS", "meta" : { - "deprecated" : true + "definition" : { + "val" : "A count of the number of patients that some hospital facility has the capacity for." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000177", - "lbl" : "obsolete ethnic identity question asking process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000255", + "lbl" : "proportion of population in an elementary occupation", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A data item that is the output of some data transformation that takes as input the number of individuals in a population who are occupation holders and has as output the proportion of those individuals who are classified by the European Skills, Competences, Qualifications and Occupations as door-to-door sales worker, news or street vendors; building cleaning workers; pressers, textile, garment, or related materials; septic tank servicers or sewer pipe cleaners; farmworkers or laborers, crop, nursery, or greenhouse; farmworkers, farm, ranch, or aquacultural animal; agricultural workers, all other; landscaping or groundskeeping workers; grounds maintenance workers, all other; forest or conservation workers; logging workers, all other; fishing or hunting workers; helpers--extraction workers; extraction workers, all other; helpers, construction trades; rail-track laying or maintenance equipment operators; construction laborers; helpers--production workers; production workers, all other; laborers or material movers; refuse or recyclable material collectors; couriers or messengers; material moving workers, all other; aircraft cargo handling supervisors; first-line supervisors of helpers, laborer, or material mover, hand; first-line supervisors of transportation worker, all other; tank car, truck, or ship loaders; cooks, fast food; cooks, short order; food preparation workers; dining room or cafeteria attendants or bartender helpers; dishwashers; food preparation or serving related workers, all other; personal care or service workers, all other; baggage porters or bellhops; maintenance or repair workers, general; installation, maintenance, or repair workers, all other; meter readers, utilities; coin, vending, or amusement machine servicers or repairers; motion picture projectionists; ushers, lobby attendants, or ticket takers; amusement or recreation attendants; locker room, coatroom, or dressing room attendants; and parking attendants." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OMRSE_00000199" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Currently, the Occupation Ontology (OccO ) only represents occupations as they are defined by O*NET. We define this class extentionally according to the O*NET-defined occupations that map to occupations in ESCO that are classified as elementary occupations." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000178", - "lbl" : "obsolete race identity question asking process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000256", + "lbl" : "Medicaid policy holder role", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A policy holder role that inheres in a person who participates in the creation of an insurance policy with a US state Medicaid agency." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OMRSE_00000200" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000179", - "lbl" : "answer to identity question", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000180", - "lbl" : "obsolete American Indian or Alaska Native identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000257", + "lbl" : "insurance company", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." + "val" : "An insurance organization that is privately owned and that participates in the creation of insurance policies in return for some money from the policy holder." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB American Indian or Alaska Native identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000181", - "lbl" : "obsolete Asian identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000258", + "lbl" : "private insurance policy holder role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." + "val" : "A policy holder role that inheres in a person who participates in the creation of an insurance policy with an insurance company." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB Asian identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000182", - "lbl" : "obsolete black or African American identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000259", + "lbl" : "US state Medicaid agency", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the black racial groups of Africa." + "val" : "A government organization that administers a given US state's Medicaid program by participating in the creation of insurance policies with eligible people and by participating in some payment of debt for a specified aggregate of health care encounters, specified processes (e.g, treatments, diagnostic tests) that are part of those encounters, and material entities used or prescribed during the encounters (e.g., medicine, prosthetics, glasses)." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB black or African American identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000183", - "lbl" : "obsolete Native Hawaiian or other Pacific Islander identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000262", + "lbl" : "categorization scheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." + "val" : "Information content entity that characterizes some aggregate of entities as partitioned into distinct subgroups, thereby demarcating them as categories." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB Native Hawaiian or other Pacific Islander identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000184", - "lbl" : "obsolete white identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000265", + "lbl" : "social categorization scheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Europe, the Middle East, or North Africa." + "val" : "Categorization scheme that divides humans into groups considered by themselves or others as distinct on the basis of assumed common characteristics." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB white identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000185", - "lbl" : "obsolete OMB racial identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000267", + "lbl" : "social category", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms." + "val" : "Collection of humans demarcated by some social categorization scheme." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB racial identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000186", - "lbl" : "heavy smoker role", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A role that inheres in an organism and is realized by habitually smoking 10 or more tobacco cigerettes a day or the equivalent in other tobacco products." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000187", - "lbl" : "light smoker role", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A role that inheres in an organism and is realized by habitually smoking 1>10 tobacco cigerettes a day or the equivalent in other tobacco products." - } + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000188", - "lbl" : "answer set", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000189", - "lbl" : "question text", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000190", - "lbl" : "option as member of some answer set", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000191", - "lbl" : "residential facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000268", + "lbl" : "racial categorization scheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A facility that has at least one housing unit as part in which a person or persons live" + "val" : "Social categorization scheme based on characteristics assumed to be biologically hereditary and to result in part from common locality of ancestors." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "residential facility" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Modified version of definition provided by Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000192", - "lbl" : "obsolete communication", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000269", + "lbl" : "racial category", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A process in which some participant shares some information content entity about some state of that participant with some other participant." + "val" : "Social category demarcated by some racial categorization scheme." }, - "comments" : [ "The term 'participant' in the definition need not refer to a human agent." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000193", - "lbl" : "obsolete linguistic competence", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000270", + "lbl" : "ethnic categorization scheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A disposition inhering in a material entity that, if realized, is realized by that material entity’s communicating via some linguistic concretization." + "val" : "Social categorization scheme based on characteristics that are primarily cultural—such as ancestry, history, national or tribal background, cultural attachments or traditions, past linguistic heritage, religious affiliations, caste, or claimed kinship." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000194", - "lbl" : "obsolete language", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000271", + "lbl" : "ethnic category", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A disposition inhering in a linguistic community that (i) is a maximal aggregate of communicatively compatible linguistic competences, and (ii) if realized, is realized by any and all realizations of those linguistic competences." + "val" : "Social category demarcated by some ethnic categorization scheme." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" - } ], - "deprecated" : true + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000195", - "lbl" : "linguistic community", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000274", + "lbl" : "personal data disclosure", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A maximal aggregate of material entities such that each member bears a linguistic competence for the same language." + "val" : "Communication in which a person reports some data items about either that person or another person." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" @@ -13277,41 +12474,34 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000196", - "lbl" : "obsolete expression of preferred language", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000277", + "lbl" : "subjective representation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A communication in which some participant states a preference for some communicative process to be in a certain language, and that has a concretization of a preferred language information content entity as its specified output." + "val" : "Cognitive representation in which the representation’s bearer is represented as being its bearer." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000197", - "lbl" : "obsolete preferred language information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000278", + "lbl" : "social identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that (i) is about some person, some language, and some linguistic competence; and (ii) conveys the language with which that person prefers to communicate within some given context." + "val" : "Subjective representation of its bearer as being a member of some social category." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", @@ -13319,2681 +12509,2635 @@ }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000198", - "lbl" : "information content entity-request process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000279", + "lbl" : "racial identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a communication in which some participant requests of some other participant an information content entity about some portion of reality" + "val" : "Social identity for which the category is a racial category." }, - "comments" : [ "As with the parent class, 'participant' in the definition need not refer to a human agent.", "The medium and grammatical form are irrelevant. For example, the request may be written or spoken, and while it may be in the form of a question, it need not be." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000199", - "lbl" : "information content entity request about ethnic identity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000281", + "lbl" : "ethnic identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "an information content entity-request process in which some participant requests of some other participant an information content entity that indicates the ethnic identity of that other participant" + "val" : "Social identity for which the category is an ethnic category." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000200", - "lbl" : "information content entity request about racial identity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000282", + "lbl" : "behavioral identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "an information content entity-request process in which some participant requests of some other participant an information content entity that indicates the racial identity of that other participant" + "val" : "Social identity for which the category is also a behaviorally distinct group defined by its members degree of participation in some type of behavior." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000201", - "lbl" : "admission process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000284", + "lbl" : "occupation disposition", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic document act in which a patient is registered with a health care provider for the purpose of receiving care in an inpatient encounter." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000202", - "lbl" : "cancer summary staging", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A planned process of determining the extent to which a cancer disease has developed by growing and spreading throughout an organism." + "val" : "A disposition that, if realized, is realized when the bearer intends to, and does, exercise abilities and skills in pursuit of obtaining or maintaining an job role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "cancer summary staging" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The cancer summary staging performed on patient John Doe's clinical picture." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "tumor summary staging" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000203", - "lbl" : "cancer summary staging code", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An information content entity that is the specified output of cancer summary staging." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "cancer summary staging code" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The cancer summary staging code that is the outcome of the cancer summary staging performed on patient John Doe's clinical picture." + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Damion Dooley" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "tumor summary staging code" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000204", - "lbl" : "social identity information content entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An information content entity that is intended to be a truthful statement about some person and whether that person identifies as some particular aspect of social identity—such as a gender, an ethnicity, a race, or a sexual orientation—where the sense of identifying may correspond to either (i) an aspect of one’s cognitive representation of oneself, (ii) how one prefers to be regarded by others within some social context, or (iii) how one chooses to present oneself to others within some social context." - }, - "comments" : [ "We include (i)-(iii) to acknowledge that there are different senses of \"identify\" that are relevant here, and that we may not always be sure which sense the person concretizing the social identity information content entity intended. While (i) concerns how one thinks of oneself, (ii) and (iii) are more focused on one's interactions with others. Importantly, some choose not to share with others how they identify in the sense of (i). For example, one can consider oneself to be some certain gender without either wanting others to know or choosing to present oneself in a corresponding way. We distinguish (ii) and (iii) because one can prefer to be regarded some certain way without attempting to present oneself in any corresponding way." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jie Zheng" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "val" : "John Beverley" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "John W. Judkins" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "Sam Smith" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "William D. Duncan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Yongqun He" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000205", - "lbl" : "ethnic identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000285", + "lbl" : "occupation activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social identity information content entity that is about whether some person identifies as some ethnicity." + "val" : "A process in which an occupation holder participates that realizes either an occupation disposition or job role." }, - "comments" : [ "Ethnicity is separate from but related to racial identity. It refers more to identifying with a particular culture than with individuals similar in physical appearance. It includes things like Hispanic ethnicity (which spans many nations) and national cultural identities like Irish and ethnic groups within nations such as Catalan and Armenian." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "occupation process" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Damion Dooley" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "Eric Merrell" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "Jie Zheng" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000206", - "lbl" : "OMB ethnic identity information content entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An ethnic identity information content entity that uses OMB terminology for ethnicity or terminology that is strictly mapped onto the OMB ethnicity terms." - }, - "comments" : [ "OMB dichotomizes ethnicity into Hispanic or Latino and Not Hispanic or Latino, and ignores all other forms of ethnicity." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "John Beverley" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "val" : "John W. Judkins" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Sam Smith" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "William D. Duncan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "William R. Hogan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "val" : "Yongqun He" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000207", - "lbl" : "OMB Hispanic or Latino identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000286", + "lbl" : "U.S. veteran role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB ethnic identity information content entity that is about some person's identifying as Hispanic or Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." + "val" : "A human role within an organization that inheres in a person who has served in a branch of the U.S. military, is not currently serving in the U.S. military, and the person's service ended in accordance to conditions defined by the U.S. government." }, - "comments" : [ "It comprehends people of Portuguese culture or origin in Brazil." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "38 U.S.C. §101(2), as well as “Determining Veteran Status” by the U.S. Department of Veterans Affairs (VA) Office of Small and Disadvantaged Business Utilization (OSDBU): https://www.va.gov/OSDBU/docs/Determining-Veteran-Status.pdf." }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "William D. Duncan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000208", - "lbl" : "OMB not Hispanic or Latino identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000500", + "lbl" : "job role data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB ethnic identity information content entity that is about some person's identifying as neither Hispanic nor Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." + "val" : "A data item that is about a person's job role and/or its realization." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Can be about any aspect of employment, such as salary, work location, or employer." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "employment data item" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "Chris Stoeckert" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "S. Clint. Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000209", - "lbl" : "gender identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000501", + "lbl" : "income data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000502", + "lbl" : "government assistance health care plan data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000503", + "lbl" : "health care plan data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000504", + "lbl" : "government assistance income data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000505", + "lbl" : "WIC data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000506", + "lbl" : "socio-economic data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000507", + "lbl" : "obsolete non-binary gender identity datum", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social identity information content entity that is about whether some person identifies as some gender." + "val" : "A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender." }, + "comments" : [ "Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.)\n\nExamples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role)" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "non-binary gender identity datum" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "Paul Fabry" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Afaraf" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Qafar af" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Qafaraf" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "’Afar Af" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "non-binary gender identity information content entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002025", + "val" : "aa" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "aar" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "aar" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000210", - "lbl" : "female gender identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002029", + "lbl" : "education process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gender identity information content entity that is about some person's identifying as female in gender." + "val" : "A planned process with an active participant who acquires mental representations of information content entities (ICEs), which had no previous mental representation in the cognitive system, and through repeated use or application of these ICEs either (1) becomes the bearer of a new instance of some type of capability, and the participant was not previously the bearer of that instance of that type of capability, (2) \"improves\" an existing capability as demonstrated through realization(s) of that capability, and/or (3) loses a capability whose realization is considered negative." }, + "comments" : [ "An interesting question is whether there must be another participant who is the \"educator\". Some might object that many people are \"self taught\". A real case of being self taught is the first person who learned to play a stringed instrument, or to spin a ball on the tip of a finger. There was no previous information about that type of skill. The ICEs acquired are via one's sensory systems (vision, proprioception, auditory, etc.).\n\nOn the other hand, in the case of those who are self-taught by reading books or watching videos, or acquiring some other form of ICEs concretized outside their brain, one argument might be that the author of those ICEs somehow \"plays a role\" in the education, although they cannot participate in the education process itself (If I read Aristotle, and through repeated application of the information I acquire through doing so, develop the ability to write better ontology definitions, surely Aristotle did not actively participate in my particular education process, although he did influence it in a very real way).", "The loss of a \"bad\" capability is something like losing a bad golf swing and replacing it with a good one. Also a capability to disrupt the classroom might be something an educating process diminishes possibly to the point of \"removal\" in a student.\n\nThis addition to the definition notwithstanding, we do not intend to incorporate the receipt of punishment into the definition of educating." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "educating" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "learning process" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An act of acquiring new information and repeatedly applying that information to develop a new skill, improve an existing skill, and/or losing a skill at doing something \"bad\"." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000211", - "lbl" : "male gender identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002030", + "lbl" : "educational objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gender identity information content entity that is about some person's identifying as male in gender." + "val" : "An objective specification that describes the type of capability or capabilities to be imparted or improved by its realization, which is an educating (education process)." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "educational objective specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An objective specification that describes the new knowledge & skill(s) to be obtained via an education process." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000212", - "lbl" : "non-binary identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002031", + "lbl" : "educational program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gender identity information content entity that is about some person's identifying as non-binary in gender." + "val" : "A plan specification with an educational objective specification as part." }, + "comments" : [ "Very broad. Covers everything from grade school to high school to college to graduate education, a MOOC, an individual course, a tutorial at a conference, a continuing education course or program, an informed consent video, etc, etc." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "educational plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A plan specification with one or more educational objectives." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000213", - "lbl" : "racial identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002032", + "lbl" : "completing a program of education", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social identity information content entity that is about whether some person identifies as some race." + "val" : "An educating that realizes a concretization of some program of education." }, + "comments" : [ "Note that parent class 'educating' and referenced class 'program of education' are defined elsewhere in this education module of OMRSE.", "This class refers extremely broadly to the successful realization of any program of education: a single course, first grade, MD, PhD, high school, the ninth grade, getting a black belt in karate, getting a master mechanic certification, a bachelor's degree, a masters degree, a graduate certificate, early childhood education program, and even getting a certificate at the end of some week-long workshop, summer camp, a certifcate from a cooking class, an actuarial certification." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "completing a program of education" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000214", - "lbl" : "OMB racial identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002033", + "lbl" : "early childhood education plan specification", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity information content entity that uses OMB terminology and definitions for race or terminology that is strictly mapped onto the OMB race terms." + "val" : "An educational program whose intended active participant, when a concretization of it is realized, is a human child of age birth to 8 years or a human fetus prior to birth." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "early childhood education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "pre-K education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "prekindergarten education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "preschool education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://apps.who.int/iris/bitstream/handle/10665/69729/a91213.pdf?sequence" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000215", - "lbl" : "OMB American Indian or Alaska Native identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002034", + "lbl" : "primary education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as American Indian or Alaska Native, which is intended to mean having origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." + "val" : "An education plan specification with one or more primary education objective specifications as parts, and these are the only objective specifications it has as parts." }, - "comments" : [ "This definition corresponds to that used by OMB. It is worth noting that the OMB definition from which this one is derived is problematic, in that it implies that one's race cannot be Native American or Alaskan Native unless one maintains tribal affiliations or community attachment." ], + "comments" : [ "In the united states, also called \"elementary education\"", "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only primary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Primary education provides learning and educational activities typically designed to provide students with fundamental skills in reading, writing and mathematics (i.e. literacy and numeracy), and to establish a sound foundation for learning and solid understanding of core areas of knowledge and personal development, preparing for lower secondary education. It aims at learning at a basic level of complexity with little if any specialisation." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "primary education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "elementary education" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000216", - "lbl" : "OMB Asian identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002035", + "lbl" : "primary education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as Asian, which is intended to mean having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." + "val" : "An education objective specification that has a concretization that, when realized, results in the active participant's acquisition and development of fundamental skills in reading, writing and mathematics (i.e. literacy and numeracy)." }, + "comments" : [ "By the end of primary education, the student has established a sound foundation for learning and solid understanding of core areas of knowledge and personal development, preparing for lower secondary education. It aims at learning at a basic level of complexity with little if any specialisation." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "primary education objective specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/en/glossary-term/primary-education-isced-1" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000217", - "lbl" : "OMB black or African American identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002036", + "lbl" : "lower secondary education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as black or African American which is intended to mean having origins in any of the black racial groups of Africa." + "val" : "An education objective specification that has a concretization that, when realized, confers to the active participant skills and knowledge in subject areas more specialized than basic reading, writing, and mathematics, with the overall goal of laying the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities." }, + "comments" : [ "Examples of specific subjects could--but are not necessarily required to--include biology, history, science, literature, music, art. Programs at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects.", "Programmes at ISCED level 2, or ‘lower secondary’ education, are typically designed to build upon the fundamental teaching and learning processes which begin at ISCED level 1. Usually, the educational aim is to lay the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities. Programmes at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "lower secondary education objective specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/en/glossary-term/lower-secondary-education-isced-2" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000218", - "lbl" : "OMB Native Hawaiian or other Pacific Islander identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002037", + "lbl" : "awarding an academic degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as Native Hawaiian or other Pacific Islander, which is intended to mean having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." + "val" : "A deontic document act that has as specified output an academic degree and that confers on recipient of the academic degree the recognition and the claims and obligations that accompany the degree." }, + "comments" : [ "Different degrees have different claims and obligations associated with them. For example, having a medical degree (either M.D. or D.O.) entitles a person to sit for stage 3 of the US Medical Licensing Exam (otherwise one may not take the exam)." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "awarding of an academic degree" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000219", - "lbl" : "OMB white identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002038", + "lbl" : "basic education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as white which is intended to mean having origins in any of the original peoples of Europe, the Middle East, or North Africa." + "val" : "An education plan specification that has as part both a primary educational objective specification and a lower secondary educational objective specification." }, + "comments" : [ "Most nations in the world mandate that children complete at least a basic education program. Some nations go further and include upper secondary education after basic education.", "Whole range of educational activities, taking place in various settings, that aim to meet basic learning needs as defined in the World Declaration on Education for All (Jomtien, Thailand, 1990). According to ISCED standard, basic education comprises primary education (first stage of basic education) and lower secondary education (second stage). It also covers a wide variety of non-formal and informal public and private activities intended to meet the basic learning needs of people of all ages." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "basic education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/en/glossary-term/basic-education" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000220", - "lbl" : "sexual orientation identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002039", + "lbl" : "lower secondary education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social identity information content entity that is about whether some person identifies as having some sexual orientation." + "val" : "An education plan specification with one or more lower secondary education objective specifications as parts, and these are the only objective specifications it has as parts." }, + "comments" : [ "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only lower secondary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Programmes at ISCED level 2, or ‘lower secondary’ education, are typically designed to build upon the fundamental teaching and learning processes which begin at ISCED level 1. Usually, the educational aim is to lay the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities. Programmes at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects.", "Requires successful completion of a primary education program as a pre-requisite." ], "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "lower secondary education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000221", - "lbl" : "residence ZIP code information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002040", + "lbl" : "upper secondary education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is about some geographical region, in which a postal delivery route denoted by a particular ZIP code is realized, and that is the specified output of a disclosure of residence." + "val" : "An educational objective specification that has a concretization that, when realized, confers on the active participant skills and knowledge that prepare them for tertiary education, or employment, or both." }, + "comments" : [ "Programmes at ISCED level 3, or ‘upper secondary’ education, are typically designed to complete secondary education in preparation for tertiary education, or to provide skills relevant to employment, or both. Programmes at this level offer students more varied, specialised and in-depth instruction than programmes at lower secondary education (ISCED level 2). They are more differentiated, with an increased range of options and streams available." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "upper secondary education objective specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/en/glossary-term/upper-secondary-education-isced-3" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000222", - "lbl" : "debt obligation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002041", + "lbl" : "upper secondary education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A directive information entity that prescribes that something will be transferred from some human or organization that is the bearer of a duty holder role to another human or organization that is the bearer of a claimant role." + "val" : "An education plan specification with one or more upper secondary education objective specifications as parts, and these are the only objective specifications it has as parts." }, + "comments" : [ "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only lower secondary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Programmes at ISCED level 3, or ‘upper secondary’ education, are typically designed to complete secondary education in preparation for tertiary education, or to provide skills relevant to employment, or both. Programmes at this level offer students more varied, specialised and in-depth instruction than programmes at lower secondary education (ISCED level 2). They are more differentiated, with an increased range of options and streams available.", "Requires successful completion of a lower secondary education program as a pre-requisite." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "debt obligation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Three Arrows Capital declared bankruptcy on July 1, 2022 after defaulting on a $665 million debt obligation owed to Voyager Digital." + "val" : "upper secondary education plan specification" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000223", - "lbl" : "disclosure of residence", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002042", + "lbl" : "higher education program", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A social act that creates an information content entity that is about some geographical region in which a human being dwells." - }, + "comments" : [ "Includes college, university, community college, professional schools (MD, RN, PharmD, PT, OT, DDS, dental hygienist, etc.), and so on.", "Refers to all higher education beyond secondary education, and thus encompasses ISCED levels 5 and above, which will eventually be subclasses of this one.", "Requires successful completion of a secondary education program as a pre-requisite." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "higher education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "post-secondary education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "post-secondary education program" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000224", - "lbl" : "electronic health record data set", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002043", + "lbl" : "higher education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data set whose members are obtained from one or more electronic health records." + "val" : "An educational objective specification that has a concretization that, when realized, confers on the active participant skills and knowledge in a specialized discipline, and culminates in the awarding of an academic degree." }, + "comments" : [ "Refers to all education beyond secondary education that leads to the awarding of an academic degree." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "higher education objective specification" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "EHR data set" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brocchausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "val" : "post-secondary education objective" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000225", - "lbl" : "health care claim data set", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002044", + "lbl" : "vocational education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data set whose members are the specified output of some process of adjudicating health care insurance claims (and whose inputs are at least partly some members of a health care billing data set)." + "val" : "An educational objective specification that has a concretization that, when realized, is realized by a process that confers on the active participant knowledge and skills required to realize a particular type of employee role for a given occupation or trade." }, - "comments" : [ "It covers prescription claims because pharmacies bill insurance companies for patients’ prescriptions via submitting insurance claims.", "The insurance claim is submitted to the insurance company by either the patient or the provider. It is not necessarily always the provider, although in the United States, it typically is.", "The outcome of the adjudication of a claim in the claims dataset could be favorable or unfavorable for the healthcare provider, the patient, or both. The idea is just that they’ve been adjudicated, one way or the other (or anything in between if that’s a possibility).", "The reason we say billing data are only part of the input is because we are not conflating the insurance claim with the bill. It is our understanding that the provider’s bill of services is either part of the claim or “attached” to it in some manner, but doesn’t constitute the entire claim itself.", "The sources of these data are held by insurers or other health plan providers." ], + "comments" : [ "Usually the skills are a major focus moreso than in other types of education. For example, auto mechanics, plumbers, and electricians." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "vocational education objective specification" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brocchausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/sites/default/files/documents/international-standard-classification-of-education-isced-2011-en.pdf" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000226", - "lbl" : "health care billing data set", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002045", + "lbl" : "highest level of education data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data set whose members are obtained from billing-related data sources that (i) are generated by a health care organization as a result of internal administrative processes, and (ii) are about services rendered or materials used during some health care encounter." + "val" : "A socio-economic data item that is about a person and their completion of an education program (and its type), where that education program is the last one in a sequence (of education programs) that the person has completed, where each education program completed except the last one is a pre-requisite to the education program completed after it." }, + "comments" : [ "This data item in a typical attribute-value system such as table, XML, JSON takes values like \"secondary education\", \"Associate Degree\", \"Bachelor Degree\", \"High School\", and so on." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education socio-economic data item" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000227", - "lbl" : "health care administrative process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002046", + "lbl" : "vocational education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process (i) that is neither a health care process nor an ancillary health care process, and (ii) in which some employee of a health care organization manages, or helps to manage, the performance of tasks that realize the functions of that organization." + "val" : "An educational plan specification that has a vocational objective specification as part." }, + "comments" : [ "Vocational education programs are designed for learners to acquire the knowledge, skills and competencies specific to a particular occupation, trade, or class of occupations or trades. Such programs may have work-based components (e.g. apprenticeships, dual-system education programmes). Successful completion of such programs leads to labor market-relevant, vocational qualifications acknowledged as occupationally-oriented by the relevant national authorities and/or the labor market." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Recording data in an EHR. Financial tasks for a healthcare organization. Scheduling shifts for health care workers." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "vocational education plan specification" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/sites/default/files/documents/international-standard-classification-of-education-isced-2011-en.pdf" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000228", - "lbl" : "principal diagnosis-assignment process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002047", + "lbl" : "kindergarten education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." + "val" : "A primary education plan specification that specifies the competencies and information content entities that should be acquired by students in the first year of primary education in the United States." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "kindergarten education plan specification" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T12:38:43Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000229", - "lbl" : "secondary diagnosis-assignment process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002048", + "lbl" : "undergraduate higher education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about an underlying condition that is distinct from the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." + "val" : "A higher education plan specification that specifies the awarding of an associates or bachelors degree in the United States or equivalent degrees in other nations, and specifies as a pre-requisite the completion of some secondary education program." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "undergraduate higher education plan specification" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "undergraduate education program" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T12:52:46Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000230", - "lbl" : "county smoking survey plan specification", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002049", + "lbl" : "graduate higher education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A survey plan specification that aims to collect information about the smoking behavior or lack thereof of a population on a county level. Concretization of a smoking survey plan that is stratified by county." + "val" : "A higher education plan specification that specifies the awarding of a graduate certificate or degree, and specifies as a pre-requisite the awarding of an undergraduate degree." }, + "comments" : [ "Graduate degrees include masters, PhD, MD, PharmD, and other post-graduate professional degrees. To distinguish MS/PhD from the professional ones, subclass this class.", "The prerequisite degree is at the bachelors level or equivalent. An associates degree is almost never sufficient for entry into graduate education programs." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Alachua county smoking survey plan specification." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jiang Bian" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "graduate higher education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "graduate education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:01:34Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000231", - "lbl" : "county smoking survey execution", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002050", + "lbl" : "highest level of education is grades 1 through 6 data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A survey execution that realizes the concretization of a smoking survey plan specification that is stratified by county." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of first through sixth grade." }, + "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of primary education in the United States." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Alachua county smoking survey execution." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education is completion of grades one through six socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jiang Bian" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:23:46Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000232", - "lbl" : "county smoking survey data", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002051", + "lbl" : "highest level of education is grades 7 through 9 data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Survey data that is the specified output of a county smoking survey execution." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of seventh (7th) through ninth (9th) grade." }, + "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of lower secondary education in the United States." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Alachua county smoking survey data." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education is completion of grades seven through nine socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jiang Bian" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:27:15Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000233", - "lbl" : "smoking rate calculation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002052", + "lbl" : "highest level of education is grades 10 through 12 data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data transformation that has data about the smoking status of a population as its specified input and a percentage or ratio of smokers in that population as a specified output." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of tenth (10th) through twelfth (12th) grade." }, + "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of upper secondary education in the United States." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Calculating the Alachua County smoking rate from Alachua County smoking data." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education is completion of grades ten through twelve socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:27:50Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000234", - "lbl" : "county smoking rate data", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002053", + "lbl" : "highest level of education is completion of undergraduate degree data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data item that is the specified output of a smoking rate calculation that has data about smoking behavior or lack there of on a county level." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some undergraduate degree." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Alachua County smoking rate." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education is completion of some undergraduate degree socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:28:27Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000235", - "lbl" : "money", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002054", + "lbl" : "highest level of education is completion of graduate certificate or degree data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A debt obligation between two parties that has part a scalar value specification and whose concretizations indicate that their bearers can be used in a financial transaction or payment of debt, or as a measure of the value of some entity in a financial valuation process or prospective financial valuation process." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some graduate certificate or degree." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "money" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Todd does not have enough money to buy more plants at the horticultural club's poinsettia sale." + "val" : "highest level of education is completion of some graduate degree socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:28:49Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000236", - "lbl" : "currency", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002055", + "lbl" : "highest level of education is completion of vocaational education program data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A material entity that is the bearer of a concretization of money and is created by some governmental organization or on behalf of some governmental organization that has authorized its creation." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some vocational education program." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "currency" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "US currency is an accepted form of legal tender, not just in the United States, but in many countries around the world, such as El Salvador." + "val" : "highest level of education is completion of some vocational education program socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:29:28Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000237", - "lbl" : "exchange of ownership", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002056", + "lbl" : "highest level of education is completion of kindergarten data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process whereby one agent (or active participant) or a group of agents transfer ownership of some property to another agent (or active participant) or group of agents in the process, who in return transfer ownership of some their property to the first agent (or active participant)." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is pre-kindergarten." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates that a person has completed only early childhood education and nothing more." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "exchange of ownership" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Tom exchanged ownership of his computer for Tina's scooter." + "val" : "highest level of education is completion of kindergarten socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "barter" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:47:38Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000238", - "lbl" : "financial transaction", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002057", + "lbl" : "highest level of education is completion of pre-kindergarten data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process whereby one participant partly or completely fulfills an obligation to another participant by transferring ownership of some other debt obligation, which is typically money." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is kindergarten." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "financial transaction" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Apple acquired semiconductors from Samsung in a financial transaction yesterday." + "val" : "highest level of education is completion of pre-kindergarten socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "monetary transaction" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:48:10Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000239", - "lbl" : "payment of debt", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002058", + "lbl" : "linguistic literacy competence", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process whereby ownership of some entity of value is transferred by one participant to another to fulfill some obligation, on their behalf, after some service is performed or the ownership of some entity is exchanged." + "val" : "A disposition borne by a human being that (1) has a linguistic competence as a dispositional part and (2) if realized, is realized by the bearer's achievement of some personal goal." }, + "comments" : [ "Other dispositions that it can and likely does have as dispositional parts include cultural competencies, interpersonal competencies, competencies for navigating a society's systems of laws, claims, obligations, deontic declarations, and norms of financial and other economic exchange.", "The realization of this disposition by definition realizes the bearer's linguistic competence that is a dispositional part of this disposition. The realization of the linguistic competence would be an occurrent part of the realization of this disposition (and not a temporal part).", "Whereas linguistic competence may be afforded to non-human agents, literacy is nearly always considered in the context of human beings." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "payment of debt" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "I made a debt payment with my credit card company yesterday and no longer owe them money." + "val" : "language literacy competence" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "human literacy" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "linguistic literacy" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "val" : "Jiang Bian" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Xi Yang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Yonghui Wu" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000240", - "lbl" : "financial valuation process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002059", + "lbl" : "caregiver role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that has as specified output some scalar measurement datum that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some other material entity." + "val" : "A human social role that, if realized, is realized in providing assistance in the activities of daily living of another human being who possesses reduced capability to complete some of these activities alone." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "financial valuation process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The financial valuation of Ravi's car today determined that the car is worth $2000." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "John Judkins" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000241", - "lbl" : "prospective financial valuation process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002060", + "lbl" : "family relationship", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that has as specified output some predicted value that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some material entity at some point in the future." + "val" : "A relational quality that inheres within two or more persons related as members of a domestic group, or a number of domestic groups linked through descent from a common ancestor, marriage, or adoption." }, + "comments" : [ "We are also intending on including other family arrangements. This is something we are working on." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "prospective financial valuation process" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ERO_0002033" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The prospective valuation of my company's stock indicates strong optimism for our financial growth over the next few years." + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "John Judkins" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000242", - "lbl" : "intimate partnership", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002061", + "lbl" : "monetary personal income data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relational quality inhering in persons by virtue of being each other’s spouse, boyfriend/girlfriend, dating partner, or ongoing sexual partner." + "val" : "A data item that is about the sum of earnings for some person(s) from various forms of payment or profits." }, + "comments" : [ "We use the phrase ‘some person’ in the definition because this class can be about an individual's or a household's earnings. Similarly, we use 'personal income' in the label because the term is typically restricted to individuals and households. This class is also restricted to being about monetary forms of income." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Examples of monetary forms of payment include: wages, salary, or tips; interest generated by capital; dividends earned; lottery, game, or contest monetary winnings; alimony; royalties; trusts; pensions; receipt of rental payments; unemployment payments; social security payments; worker's compensation; social security payments; or profit from entrepreneurial activities." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Chris Stoeckert" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000243", - "lbl" : "abusive behavior", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002062", + "lbl" : "concretization-utilization process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Behavior that is cruel, violent, demeaning, or invasive." + "val" : "Process in which some participant utilizes some specifically dependent continuant as a concretization of some generically dependent continuant." }, + "comments" : [ "Instances include any process that brings it about that some specifically dependent continuant begins to stand in a concretization relation to some generically dependent continuant, as well as any process in which someone makes use of a pre-established concretization relation. To be clear, instances do not include using concretizations of words or letters for purposes that do not make use of the concretization relations in which they stand (for example, hanging up a sign in a foreign language as a decoration because one likes the colors, despite having no idea what the sign says).", "Instances include, but are not limited to, processes that bring about cognitive concretizations." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Taking notes on a meeting is an example in which the concretization relation is newly established, since the SDCs that concretize the GDCs come into existence as the notes are written. In contrast, using slides prepared by someone else in order to convey information during a presentation is a case of using a concretization in which the performer neither brings the concretizing SDCs into existence nor is responsible for their standing in the concretization relation to the relevant GDCs. A nonlinguistic example is drawing the logo of one’s favorite brand, in which one creates a pattern that concretizes a GDC that is also concretized by patterns on products of the brand." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000244", - "lbl" : "psychologically abusive behavior", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002063", + "lbl" : "linguistic concretization-utilization process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Abusive behavior in which the aggressor does or attempts to do the following: mentally or emotionally harm or exert control over another." + "val" : "A concretization-utilization process in which the utilized specifically dependent continuant concretizes the generically dependent through use of some language." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000245", - "lbl" : "physically abusive behavior", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002064", + "lbl" : "concretization-interpretation process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Abusive behavior in which the aggressor does or attempts to do the following: harm, restrain, or coerce another through physical force." + "val" : "Process in which some participant infers that some particular specifically dependent continuant stands in the concretization relation to some particular generically dependent continuant." }, + "comments" : [ "The interpretation need not be accurate. It may even be the case that the specifically dependent continuant has not previously concretized anything." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "For example, reading a text message that says, “It is raining outside,” and inferring that the words on the screen are meant to convey information about the weather. The pattern on the screen that corresponds to the words is the SDC, and the ICE about the rain is the GDC. Or, hearing your spouse say, “Can you come to the kitchen?” and then knowing that your spouse wants you to come to the kitchen. You have interpreted the patterns of the sound as concretizing a GDC about what your spouse wants. Or, seeing a drawing of a basketball player and inferring—perhaps incorrectly—that it is of Michael Jordan." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000246", - "lbl" : "sexually abusive behavior", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002065", + "lbl" : "linguistic concretization-interpretation process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Abusive behavior in which the aggressor does or attempts to do the following: force or coerce another to participate in a sexual act to which the latter has not freely given consent." + "val" : "A concretization-interpretation process in which the specifically dependent continuant is inferred to concretize the generically dependent continuant in a way that makes use of some language." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000247", - "lbl" : "is abuse of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation between an abusive behavior and one upon whom it is inflicted." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000248", - "lbl" : "has aggressor", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation between an abusive behavior and one who inflicts it upon someone or something else." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "Sarah Bost" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000249", - "lbl" : "birth attendant role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002066", + "lbl" : "linguistic competence", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care provider role that is realized in maintaining the health of a human being during their pregnancy and both them and the neonate during labor, delivery, and postpartum." + "val" : "A disposition that inheres in some material entity and is such that that, if realized, it is realized by either some linguistic concretization-utilization process or some linguistic concretization-interpretation process." }, + "comments" : [ "When realized in a concretization-utilization process, the only relevant concretization may in some cases be a cognitive one, but that suffices to realize a linguistic competence. For example, suppose one begins to write a letter, planning out the words ahead of time, but is interrupted before beginning to write and never resumes. During the process of planning out the words and what one intends to communicate, one is already concretizing words cognitively, as well as considering which combinations of words one can use to concretize additional generically dependent continuants. In doing so, one performs processes that realize one's linguistic competence, without producing any concretizations other than those cognitive ones." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "skilled birth attendant role" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "https://orcid.org/0000-0001-6595-0902" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000250", - "lbl" : "linguistic competence information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002068", + "lbl" : "communication", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that conveys that a particular person has a linguistic competence for a particular language" + "val" : "A process in which some participant shares some generically dependent continuant with some other participant. The former utilizes some specifically dependent continuant that concretizes the generically dependent continuant intended to be shared, while the latter interprets that specifically dependent continuant to concretize some particular generically dependent continuant, aiming to accurately infer the other participant’s intent." }, + "comments" : [ "For example, if you tell someone, “It is raining,” you produce sounds that have patterns that concretize information about the weather. Your utilization of that concretization is part of the communication. When the other person hears you, they interpret those patterns to concretize something, which may or may not be the same as what you intended to convey. In other words, they interpret the sounds you produce to have meanings associated with them, and that interpretation process is another part of the communication. If a process does not have a part of each type, it is not a communication.", "The interpretation need not correspond exactly to what was intended by the other participant.", "The term 'participant' in the definition need not refer to a human agent." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Barry Smith" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jobst Landgrebe" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000251", - "lbl" : "primary language information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002069", + "lbl" : "language", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A linguistic competence information content entity that conveys the language is the one for which the person has their most proficient linguistic competence." + "val" : "A disposition that (i) is an aggregate of linguistic competences, considered as forming a distinct group on the basis of perceived common characteristics, such as mutual intelligibility among their bearers, in addition to historical or cultural factors; (ii) if realized, is realized in any and all realizations of those linguistic competences; and (iii) inheres in a linguistic community." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Barry Smith" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jobst Landgrebe" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000252", - "lbl" : "language-at-home information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002070", + "lbl" : "disclosure of preferred language", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A linguistic competence information content entity that conveys the person uses the language at home." + "val" : "A communication in which some participant states a preference for some communicative process to be in a certain language, via some concretization of some preferred language information content entity." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Barry Smith" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jobst Landgrebe" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000253", - "lbl" : "religious gathering", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002071", + "lbl" : "preferred language information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act or aggregate of social acts that include some worship, prayer, or proselytizing." + "val" : "An information content entity that is about some person and some language, and that conveys the language with which that person prefers to communicate within some given context." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000254", - "lbl" : "hospital bed capacity data item", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002072", + "lbl" : "role in human social processes", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A count of the number of patients that some hospital facility has the capacity for." + "val" : "A role that inheres in some entity that is realized in a social act." }, + "comments" : [ "Previous definition: A role played by an entity in human social processes." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/omrse/releases/2023-10-08/omrse.owl" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000255", - "lbl" : "proportion of population in an elementary occupation", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000074", + "lbl" : "academic degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data item that is the output of some data transformation that takes as input the number of individuals in a population who are occupation holders and has as output the proportion of those individuals who are classified by the European Skills, Competences, Qualifications and Occupations as door-to-door sales worker, news or street vendors; building cleaning workers; pressers, textile, garment, or related materials; septic tank servicers or sewer pipe cleaners; farmworkers or laborers, crop, nursery, or greenhouse; farmworkers, farm, ranch, or aquacultural animal; agricultural workers, all other; landscaping or groundskeeping workers; grounds maintenance workers, all other; forest or conservation workers; logging workers, all other; fishing or hunting workers; helpers--extraction workers; extraction workers, all other; helpers, construction trades; rail-track laying or maintenance equipment operators; construction laborers; helpers--production workers; production workers, all other; laborers or material movers; refuse or recyclable material collectors; couriers or messengers; material moving workers, all other; aircraft cargo handling supervisors; first-line supervisors of helpers, laborer, or material mover, hand; first-line supervisors of transportation worker, all other; tank car, truck, or ship loaders; cooks, fast food; cooks, short order; food preparation workers; dining room or cafeteria attendants or bartender helpers; dishwashers; food preparation or serving related workers, all other; personal care or service workers, all other; baggage porters or bellhops; maintenance or repair workers, general; installation, maintenance, or repair workers, all other; meter readers, utilities; coin, vending, or amusement machine servicers or repairers; motion picture projectionists; ushers, lobby attendants, or ticket takers; amusement or recreation attendants; locker room, coatroom, or dressing room attendants; and parking attendants." + "val" : "An information content entity that is the specified outcome of and documents the sucessful completion of a tertiary education program." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Currently, the Occupation Ontology (OccO ) only represents occupations as they are defined by O*NET. We define this class extentionally according to the O*NET-defined occupations that map to occupations in ESCO that are classified as elementary occupations." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "John Judkins" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", + "val" : "Recognized degree awarded after successful completion of a college or post-graduate porgram." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000256", - "lbl" : "Medicaid policy holder role", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000081", + "lbl" : "associate degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A policy holder role that inheres in a person who participates in the creation of an insurance policy with a US state Medicaid agency." + "val" : "An academic degree awarded by colleges and universities upon completion of a program of study lasting two years." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/w/index.php?title=Associate_degree&oldid=723897149" + }, { + "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", + "val" : "Recognition awarded after completion of a specific curriculum from an accredited tertiary education provider that falls between high school and bachelor's degree program." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000257", - "lbl" : "insurance company", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000082", + "lbl" : "master's degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An insurance organization that is privately owned and that participates in the creation of insurance policies in return for some money from the policy holder." + "val" : "An academic degree awarded by universities upon completion of a course of study demonstrating a mastery or high-order overview of a specific field of study or area of professional practice.[1] Within the area studied, graduates are posited to possess advanced knowledge of a specialized body of theoretical and applied topics; high order skills in analysis, critical evaluation, or professional application; and the ability to solve complex problems and think rigorously and independently." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/w/index.php?title=Master%27s_degree&oldid=726036185" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000258", - "lbl" : "private insurance policy holder role", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000083", + "lbl" : "bachelor's degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A policy holder role that inheres in a person who participates in the creation of an insurance policy with an insurance company." + "val" : "An academic degree awarded by colleges and universities upon completion of a course of study lasting three to seven years." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/w/index.php?title=Bachelor%27s_degree&oldid=725713923" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000259", - "lbl" : "US state Medicaid agency", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000084", + "lbl" : "bachelor's of nursing degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A government organization that administers a given US state's Medicaid program by participating in the creation of insurance policies with eligible people and by participating in some payment of debt for a specified aggregate of health care encounters, specified processes (e.g, treatments, diagnostic tests) that are part of those encounters, and material entities used or prescribed during the encounters (e.g., medicine, prosthetics, glasses)." + "val" : "An academic degree in the science and principles of nursing, granted by an accredited tertiary education provider after the successful completion of a bachelor's of nursing program." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/w/index.php?title=Bachelor_of_Science_in_Nursing&oldid=725962822" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000260", - "lbl" : "lives in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relation between a household and a material entity that the household stores their possessions in and sleeps in habitually." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000262", - "lbl" : "categorization scheme", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000086", + "lbl" : "master's in the science of nursing degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Information content entity that characterizes some aggregate of entities as partitioned into distinct subgroups, thereby demarcating them as categories." + "val" : "An academic degree in the science and principles of nursing, granted by an accredited tertiary education provider after the successful completion of a master's of nursing program." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", + "val" : "An advanced academic degree in the principles and practices of nursing, with a focus on administration, education, or advanced nursing practice, granted by an accredited college or university after the successful completion of a master's of nursing program." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000263", - "lbl" : "demarcates", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/PATO_0000001", + "lbl" : "quality", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relation in which a categorization scheme stands to each category into which it partitions things." + "val" : "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities", + "xrefs" : [ "PATOC:GVG" ] + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/PATO_0000051", + "lbl" : "morphology", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "morphology" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000264", - "lbl" : "demarcated by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/PATO_0000122", + "lbl" : "length", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relation in which a category stands to the categorization scheme that demarcates it as a category." + "val" : "A 1-D extent quality which is equal to the distance between two points." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "length" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000265", - "lbl" : "social categorization scheme", + "id" : "http://purl.obolibrary.org/obo/PATO_0000125", + "lbl" : "mass", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Categorization scheme that divides humans into groups considered by themselves or others as distinct on the basis of assumed common characteristics." + "val" : "A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "mass" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000267", - "lbl" : "social category", + "id" : "http://purl.obolibrary.org/obo/PATO_0001018", + "lbl" : "physical quality", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Collection of humans demarcated by some social categorization scheme." + "val" : "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "physical quality" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000268", - "lbl" : "racial categorization scheme", + "id" : "http://purl.obolibrary.org/obo/PATO_0001025", + "lbl" : "pressure", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "Social categorization scheme based on characteristics assumed to be biologically hereditary and to result in part from common locality of ancestors." - }, + "subsets" : [ "http://purl.org/obo/owl/obo#attribute_slim" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasDefinition", + "val" : "_:genid2147485205" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasDefinition", + "val" : "_:genid2147485206" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "quality" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000269", - "lbl" : "racial category", + "id" : "http://purl.obolibrary.org/obo/PATO_0001241", + "lbl" : "physical object quality", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Social category demarcated by some racial categorization scheme." + "val" : "A quality which inheres in a continuant." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "physical object quality" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000270", - "lbl" : "ethnic categorization scheme", + "id" : "http://purl.obolibrary.org/obo/PCO_0000020", + "lbl" : "family", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Social categorization scheme based on characteristics that are primarily cultural—such as ancestry, history, national or tribal background, cultural attachments or traditions, past linguistic heritage, religious affiliations, caste, or claimed kinship." + "val" : "A domestic group, or a number of domestic groups linked through descent (demonstrated or stipulated) from a common ancestor, marriage, or adoption." }, + "comments" : [ "Family membership through marriage or adoption apply primarily to human families. In most species, family membership is defined by common anscestry." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Needs axioms for family relationships." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C25173" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000271", - "lbl" : "ethnic category", + "id" : "http://purl.obolibrary.org/obo/RO_0002577", + "lbl" : "system", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Social category demarcated by some ethnic categorization scheme." + "val" : "A material entity consisting of multiple components that are causally integrated." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.jbiomedsem.com/content/4/1/43" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000272", - "lbl" : "has primary data subject", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/UO_0000001", + "lbl" : "length unit", + "type" : "CLASS", "meta" : { - "definition" : { - "val" : "Relation in which a data item stands to the person it is both about and primarily associated with." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "length unit" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/uo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000273", - "lbl" : "primary data subject of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/UO_0000002", + "lbl" : "mass unit", + "type" : "CLASS", "meta" : { - "definition" : { - "val" : "The inverse of has primary data subject." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "mass unit" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/uo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000274", - "lbl" : "personal data disclosure", + "id" : "http://purl.obolibrary.org/obo/UO_0000003", + "lbl" : "time unit", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "Communication in which a person reports some data items about either that person or another person." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "time unit" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/uo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000275", - "lbl" : "has reporter", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/iao/d-acts.owl#obligee_role", + "lbl" : "obsolete obligee role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] + "val" : "Sarah Bost" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000276", - "lbl" : "reporter of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/iao/d-acts.owl#obligor_role", + "lbl" : "obsolete obligor role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The inverse of has reporter." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] + "val" : "Sarah Bost" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000277", - "lbl" : "subjective representation", - "type" : "CLASS", + "id" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteClass", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000050", + "lbl" : "part of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Cognitive representation in which the representation’s bearer is represented as being its bearer." + "val" : "a core relation that holds between a part and its whole" }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_gp2term", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is part of" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my brain is part of my body (continuant parthood, two material entities)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000278", - "lbl" : "social identity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Subjective representation of its bearer as being a member of some social category." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this day is part of this year (occurrent parthood)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000279", - "lbl" : "racial identity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Social identity for which the category is a racial category." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000281", - "lbl" : "ethnic identity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Social identity for which the category is an ethnic category." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "part_of" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000282", - "lbl" : "behavioral identity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Social identity for which the category is also a behaviorally distinct group defined by its members degree of participation in some type of behavior." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000002" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000284", - "lbl" : "occupation disposition", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A disposition that, if realized, is realized when the bearer intends to, and does, exercise abilities and skills in pursuit of obtaining or maintaining an job role." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Damion Dooley" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John Beverley" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000019" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John W. Judkins" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sam Smith" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000031" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William D. Duncan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://ontologydesignpatterns.org/wiki/Submissions:PartOf" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Yongqun He" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:part_of" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Part_of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000285", - "lbl" : "occupation activity", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000051", + "lbl" : "has part", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A process in which an occupation holder participates that realizes either an occupation disposition or job role." + "val" : "a core relation that holds between a whole and its part" }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "occupation process" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Damion Dooley" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has part" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Eric Merrell" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my body has part my brain (continuant parthood, two material entities)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John Beverley" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this year has part this day (occurrent parthood)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John W. Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sam Smith" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William D. Duncan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)\n\nA continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_part" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Yongqun He" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000286", - "lbl" : "U.S. veteran role", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000054", + "lbl" : "realized in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A human role within an organization that inheres in a person who has served in a branch of the U.S. military, is not currently serving in the U.S. military, and the person's service ended in accordance to conditions defined by the U.S. government." - }, + "comments" : [ "Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "realized in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "38 U.S.C. §101(2), as well as “Determining Veteran Status” by the U.S. Department of Veterans Affairs (VA) Office of Small and Disadvantaged Business Utilization (OSDBU): https://www.va.gov/OSDBU/docs/Determining-Veteran-Status.pdf." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this disease is realized in this disease course" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this fragility is realized in this shattering" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigator role is realized in this investigation" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William D. Duncan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is realized by" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "realized_in" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/ro.owl" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "[copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000500", - "lbl" : "job role data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000055", + "lbl" : "realizes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A data item that is about a person's job role and/or its realization." - }, + "comments" : [ "Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Can be about any aspect of employment, such as salary, work location, or employer." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "realizes" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this disease course realizes this disease" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "employment data item" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigation realizes this investigator role" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this shattering realizes this fragility" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint. Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000501", - "lbl" : "income data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000502", - "lbl" : "government assistance health care plan data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000503", - "lbl" : "health care plan data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000504", - "lbl" : "government assistance income data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000505", - "lbl" : "WIC data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000506", - "lbl" : "socio-economic data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000507", - "lbl" : "obsolete non-binary gender identity datum", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000062", + "lbl" : "preceded by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender." + "val" : "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." }, - "comments" : [ "Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.)\n\nExamples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role)" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "non-binary gender identity datum" + "val" : "preceded by" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Paul Fabry" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is preceded by" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "non-binary gender identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "preceded_by" + }, { + "pred" : "http://purl.org/dc/terms/source", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002025", - "lbl" : "ISO 639-1 code", + "id" : "http://purl.obolibrary.org/obo/BFO_0000063", + "lbl" : "precedes", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "ISO 639-1 assigns two-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-1 code that designates them in that standard system." ], + "definition" : { + "val" : "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-1 code" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "precedes" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002026", - "lbl" : "ISO 639-2/B code", + "id" : "http://purl.obolibrary.org/obo/BFO_0000066", + "lbl" : "occurs in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "ISO 639-2/B assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-2/B ('B' is for \"bibliographic applications\") code that designates them in that standard system." ], + "definition" : { + "val" : "b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" + }, + "comments" : [ "Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-2/B code" + "val" : "occurs in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "occurs_in" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "unfolds in" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "unfolds_in" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Occurs_in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002027", - "lbl" : "ISO 639-2/T code", + "id" : "http://purl.obolibrary.org/obo/BFO_0000067", + "lbl" : "contains process", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "ISO 639-2/T assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-2/T ('T' is for \"terminology applications\") code that designates them in that standard system." ], + "definition" : { + "val" : "[copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" + }, + "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-2/T code" + "val" : "site of" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002028", - "lbl" : "ISO 639-3 code", + "id" : "http://purl.obolibrary.org/obo/BFO_0000075", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000117", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000118", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000121", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000132", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000136", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000138", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000139", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000181", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000039", + "lbl" : "has measurement unit label", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000135", + "lbl" : "obsolete_specifically denotes", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "ISO 639-3 assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-3 code that designates them in that standard system." ], + "definition" : { + "val" : "c specifically denotes r =def \nr is a portion of reality\n& c is a particular quality\n& c depends specifically on some independent continuant b \n& b acquired c as the result of the achievement of an objective to enable pointing to r repeatedly. \n\nMarked means there is a changed or additional quality of the bearer - the quality is the information carrier.\n\nCase 1\nMemory trace as mark created when reading some description of some friend. The trace can denote.\n\nCase 2\nPattern of ink arrayed on paper as mark when writing down a friend's name\n\nCase 3\nPattern of magnetic domains on scattered pieces of a hard disk platter as mark when saving a file." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-3 code" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The process of creation is, for example, writing down on paper the name of a friend by deliberately creating a certain pattern using ink.\n\nHere the ink + paper is the independent continuant and the carrier is the pattern in the ink.\n\nc = pattern in the ink\nb = paper + ink\nr = friend" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "8/6/2009 Alan Ruttenberg: The suggestions is to deprecate specific and generically denotes in favor of a single denote relationship that corresponds to the generic sense" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002029", - "lbl" : "education process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000136", + "lbl" : "is about", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A planned process with an active participant who acquires mental representations of information content entities (ICEs), which had no previous mental representation in the cognitive system, and through repeated use or application of these ICEs either (1) becomes the bearer of a new instance of some type of capability, and the participant was not previously the bearer of that instance of that type of capability, (2) \"improves\" an existing capability as demonstrated through realization(s) of that capability, and/or (3) loses a capability whose realization is considered negative." + "val" : "A (currently) primitive relation that relates an information artifact to an entity." }, - "comments" : [ "An interesting question is whether there must be another participant who is the \"educator\". Some might object that many people are \"self taught\". A real case of being self taught is the first person who learned to play a stringed instrument, or to spin a ball on the tip of a finger. There was no previous information about that type of skill. The ICEs acquired are via one's sensory systems (vision, proprioception, auditory, etc.).\n\nOn the other hand, in the case of those who are self-taught by reading books or watching videos, or acquiring some other form of ICEs concretized outside their brain, one argument might be that the author of those ICEs somehow \"plays a role\" in the education, although they cannot participate in the education process itself (If I read Aristotle, and through repeated application of the information I acquire through doing so, develop the ability to write better ontology definitions, surely Aristotle did not actively participate in my particular education process, although he did influence it in a very real way).", "The loss of a \"bad\" capability is something like losing a bad golf swing and replacing it with a good one. Also a capability to disrupt the classroom might be something an educating process diminishes possibly to the point of \"removal\" in a student.\n\nThis addition to the definition notwithstanding, we do not intend to incorporate the receipt of punishment into the definition of educating." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "educating" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "This document is about information artifacts and their representations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "learning process" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of \"mentions\" relation. Weaken the is_about relationship to be primitive. \n\nWe will try to build it back up by elaborating the various subproperties that are more precisely defined.\n\nSome currently missing phenomena that should be considered \"about\" are predications - \"The only person who knows the answer is sitting beside me\" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An act of acquiring new information and repeatedly applying that information to develop a new skill, improve an existing skill, and/or losing a skill at doing something \"bad\"." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002030", - "lbl" : "educational objective", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000142", + "lbl" : "mentions", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An objective specification that describes the type of capability or capabilities to be imparted or improved by its realization, which is an educating (education process)." + "val" : "An information artifact IA mentions an entity E exactly when it has a component/part that denotes E" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "educational objective specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "7/6/2009 Alan Ruttenberg. P4 RC1 munges our GCI so remove it for now: mentions some entity equivalentTo has_part some ('generically denotes' some entity)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "7/6/2009 Alan Ruttenberg: Add this relation following conversation with Jonathan Rees that N&S GCI for is_about was too strong. Really it was simply sufficient. To effect this change we introduce this relation, which is subproperty of is_about, and have previous GCI use this relation \"mentions\" in it's (logical) definition" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "PERSON: Jonathan Rees" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An objective specification that describes the new knowledge & skill(s) to be obtained via an education process." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person: Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002031", - "lbl" : "educational program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000143", + "lbl" : "mentioned by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A plan specification with an educational objective specification as part." + "val" : "Inverse of the relation 'mentions'" }, - "comments" : [ "Very broad. Covers everything from grade school to high school to college to graduate education, a MOOC, an individual course, a tutorial at a conference, a continuing education course or program, an informed consent video, etc, etc." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "educational plan specification" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "http://orcid.org/0000-0002-8844-9165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A plan specification with one or more educational objectives." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/250" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2022-01-28T07:20:08Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002032", - "lbl" : "completing a program of education", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000219", + "lbl" : "denotes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An educating that realizes a concretization of some program of education." + "val" : "A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically" }, - "comments" : [ "Note that parent class 'educating' and referenced class 'program of education' are defined elsewhere in this education module of OMRSE.", "This class refers extremely broadly to the successful realization of any program of education: a single course, first grade, MD, PhD, high school, the ninth grade, getting a black belt in karate, getting a master mechanic certification, a bachelor's degree, a masters degree, a graduate certificate, early childhood education program, and even getting a certificate at the end of some week-long workshop, summer camp, a certifcate from a cooking class, an actuarial certification." ], + "comments" : [ "" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "completing a program of education" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A person's name denotes the person. A variable name in a computer program denotes some piece of memory. Lexically equivalent strings can denote different things, for instance \"Alan\" can denote different people. In each case of use, there is a case of the denotation relation obtaining, between \"Alan\" and the person that is being named." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2009-11-10 Alan Ruttenberg. Old definition said the following to emphasize the generic nature of this relation. We no longer have 'specifically denotes', which would have been primitive, so make this relation primitive.\ng denotes r =def \nr is a portion of reality\nthere is some c that is a concretization of g \nevery c that is a concretization of g specifically denotes r" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Conversations with Barry Smith, Werner Ceusters, Bjoern Peters, Michel Dumontier, Melanie Courtot, James Malone, Bill Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002033", - "lbl" : "early childhood education plan specification", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000220", + "lbl" : "obsolete_materially denotes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000221", + "lbl" : "is quality measurement of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An educational program whose intended active participant, when a concretization of it is realized, is a human child of age birth to 8 years or a human fetus prior to birth." + "val" : "m is a quality measurement of q at t. When q is a quality, there is a measurement process p that has specified output m, a measurement datum, that is about q" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "early childhood education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "8/6/2009 Alan Ruttenberg: The strategy is to be rather specific with this relationship. There are other kinds of measurements that are not of qualities, such as those that measure time. We will add these as separate properties for the moment and see about generalizing later" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "From the second IAO workshop [Alan Ruttenberg 8/6/2009: not completely current, though bringing in comparison is probably important]\n\nThis one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it \"measuring\" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail.\n\nWerner suggests a solution based on \"Magnitudes\" a proposal for which we are awaiting details.\n--\nFrom the second IAO workshop, various comments, [commented on by Alan Ruttenberg 8/6/2009]\n\nunit of measure is a quality, e.g. the length of a ruler.\n\n[We decided to hedge on what units of measure are, instead talking about measurement unit labels, which are the information content entities that are about whatever measurement units are. For IAO we need that information entity in any case. See the term measurement unit label]\n\n[Some struggling with the various subflavors of is_about. We subsequently removed the relation represents, and describes until and only when we have a better theory]\n\na represents b means either a denotes b or a describes\n\ndescribe:\na describes b means a is about b and a allows an inference of at least one quality of b\n\nWe have had a long discussion about denotes versus describes." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "pre-K education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "From the second IAO workshop: An attempt at tieing the quality to the measurement datum more carefully.\n\na is a magnitude means a is a determinate quality particular inhering in some bearer b existing at a time t that can be represented/denoted by an information content entity e that has parts denoting a unit of measure, a number, and b. The unit of measure is an instance of the determinable quality." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "prekindergarten education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "From the second meeting on IAO:\n\nAn attempt at defining assay using Barry's \"reliability\" wording\n\nassay:\nprocess and has_input some material entity\nand has_output some information content entity \nand which is such that instances of this process type reliably generate \noutputs that describes the input." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "preschool education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it \"measuring\" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail.\n\nWerner suggests a solution based on \"Magnitudes\" a proposal for which we are awaiting details." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://apps.who.int/iris/bitstream/handle/10665/69729/a91213.pdf?sequence" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002034", - "lbl" : "primary education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000222", + "lbl" : "obsolete_describes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000223", + "lbl" : "obsolete_represents", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000235", + "lbl" : "denoted by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education plan specification with one or more primary education objective specifications as parts, and these are the only objective specifications it has as parts." + "val" : "inverse of the relation 'denotes'" }, - "comments" : [ "In the united states, also called \"elementary education\"", "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only primary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Primary education provides learning and educational activities typically designed to provide students with fundamental skills in reading, writing and mathematics (i.e. literacy and numeracy), and to establish a sound foundation for learning and solid understanding of core areas of knowledge and personal development, preparing for lower secondary education. It aims at learning at a basic level of complexity with little if any specialisation." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "primary education plan specification" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "Person: Jie Zheng, Chris Stoeckert, Mike Conlon" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "elementary education" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/206" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002035", - "lbl" : "primary education objective", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000407", + "lbl" : "has coordinate unit label", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "relating a cartesian spatial coordinate datum to a unit label that together with the values represent a point" ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000413", + "lbl" : "is duration of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education objective specification that has a concretization that, when realized, results in the active participant's acquisition and development of fundamental skills in reading, writing and mathematics (i.e. literacy and numeracy)." + "val" : "relates a process to a time-measurement-datum that represents the duration of the process" }, - "comments" : [ "By the end of primary education, the student has established a sound foundation for learning and solid understanding of core areas of knowledge and personal development, preparing for lower secondary education. It aims at learning at a basic level of complexity with little if any specialisation." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "primary education objective specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://uis.unesco.org/en/glossary-term/primary-education-isced-1" + "val" : "Person:Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002036", - "lbl" : "lower secondary education objective", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000417", + "lbl" : "is quality measured as", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education objective specification that has a concretization that, when realized, confers to the active participant skills and knowledge in subject areas more specialized than basic reading, writing, and mathematics, with the overall goal of laying the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities." + "val" : "inverse of the relation of is quality measurement of" }, - "comments" : [ "Examples of specific subjects could--but are not necessarily required to--include biology, history, science, literature, music, art. Programs at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects.", "Programmes at ISCED level 2, or ‘lower secondary’ education, are typically designed to build upon the fundamental teaching and learning processes which begin at ISCED level 1. Usually, the educational aim is to lay the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities. Programmes at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "lower secondary education objective specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://uis.unesco.org/en/glossary-term/lower-secondary-education-isced-2" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002037", - "lbl" : "awarding an academic degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000418", + "lbl" : "is quality specification of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A deontic document act that has as specified output an academic degree and that confers on recipient of the academic degree the recognition and the claims and obligations that accompany the degree." + "val" : "A relation between a data item and a quality of a material entity where the material entity is the specified output of a material transformation which achieves an objective specification that indicates the intended value of the specified quality." }, - "comments" : [ "Different degrees have different claims and obligations associated with them. For example, having a medical degree (either M.D. or D.O.) entitles a person to sit for stage 3 of the US Medical Licensing Exam (otherwise one may not take the exam)." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "awarding of an academic degree" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Bjoern Peters" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002038", - "lbl" : "basic education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000419", + "lbl" : "quality is specified as", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education plan specification that has as part both a primary educational objective specification and a lower secondary educational objective specification." + "val" : "inverse of the relation of is quality specification of" }, - "comments" : [ "Most nations in the world mandate that children complete at least a basic education program. Some nations go further and include upper secondary education after basic education.", "Whole range of educational activities, taking place in various settings, that aim to meet basic learning needs as defined in the World Declaration on Education for All (Jomtien, Thailand, 1990). According to ISCED standard, basic education comprises primary education (first stage of basic education) and lower secondary education (second stage). It also covers a wide variety of non-formal and informal public and private activities intended to meet the basic learning needs of people of all ages." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "basic education plan specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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That's why we cannot say it has only lower secondary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Programmes at ISCED level 2, or ‘lower secondary’ education, are typically designed to build upon the fundamental teaching and learning processes which begin at ISCED level 1. Usually, the educational aim is to lay the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities. Programmes at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects.", "Requires successful completion of a primary education program as a pre-requisite." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "lower secondary education plan specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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Programmes at this level offer students more varied, specialised and in-depth instruction than programmes at lower secondary education (ISCED level 2). They are more differentiated, with an increased range of options and streams available." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "upper secondary education objective specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://uis.unesco.org/en/glossary-term/upper-secondary-education-isced-3" + "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002041", - "lbl" : "upper secondary education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0020012", + "lbl" : "obsolete_designates", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education plan specification with one or more upper secondary education objective specifications as parts, and these are the only objective specifications it has as parts." + "val" : "x designates y, if for any given group of language users, x is an information content entity, is about y, and represents y in a linguistic context.." }, - "comments" : [ "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only lower secondary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Programmes at ISCED level 3, or ‘upper secondary’ education, are typically designed to complete secondary education in preparation for tertiary education, or to provide skills relevant to employment, or both. Programmes at this level offer students more varied, specialised and in-depth instruction than programmes at lower secondary education (ISCED level 2). They are more differentiated, with an increased range of options and streams available.", "Requires successful completion of a lower secondary education program as a pre-requisite." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "upper secondary education plan specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000228" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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For example, auto mechanics, plumbers, and electricians." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "vocational education objective specification" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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After the declaration nothing is left of the socio-legal generically dependent continuant in question." }, - "comments" : [ "This data item in a typical attribute-value system such as table, XML, JSON takes values like \"secondary education\", \"Associate Degree\", \"Bachelor Degree\", \"High School\", and so on." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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Successful completion of such programs leads to labor market-relevant, vocational qualifications acknowledged as occupationally-oriented by the relevant national authorities and/or the labor market." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "vocational education plan specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OBIB_0000732", + "lbl" : "owns", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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This relation is the foundation to the owners right to have the owned entity at his/her full disposal." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002047", - "lbl" : "kindergarten education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBIB_0000735", + "lbl" : "is owned by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A primary education plan specification that specifies the competencies and information content entities that should be acquired by students in the first year of primary education in the United States." + "val" : "a is owned by b if b has complete power over a. All rights and obligations of ownership are grounded in this (primitive) relation. The claims and obligations of ownership can be partially transferred to a third party by the owner, b." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "kindergarten education plan specification" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" - }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T12:38:43Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Reinach, A. Sämtliche Werke. Texkritische Ausgabe, München: Philosophia Verlag, 1989, p.189-204." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002048", - "lbl" : "undergraduate higher education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBI_0000293", + "lbl" : "has_specified_input", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A higher education plan specification that specifies the awarding of an associates or bachelors degree in the United States or equivalent degrees in other nations, and specifies as a pre-requisite the completion of some secondary education program." + "val" : "The inverse property of is_specified_input_of" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "undergraduate higher education plan specification" + "val" : "has_specified_input" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has_specified_input" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "see is_input_of example_of_usage" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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To distinguish MS/PhD from the professional ones, subclass this class.", "The prerequisite degree is at the bachelors level or equivalent. An associates degree is almost never sufficient for entry into graduate education programs." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "graduate higher education plan specification" + "val" : "has_specified_output" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "graduate education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has_specified_output" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:01:34Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Larry Hunter" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002050", - "lbl" : "highest level of education is grades 1 through 6 data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBI_0000312", + "lbl" : "is_specified_output_of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of first through sixth grade." + "val" : "A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of." }, - "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of primary education in the United States." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of grades one through six socio-economic data item" + "val" : "is_specified_output_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is_specified_output_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "Alan Ruttenberg" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Bjoern Peters" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:23:46Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002051", - "lbl" : "highest level of education is grades 7 through 9 data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBI_0000846", + "lbl" : "is member of organization", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of seventh (7th) through ninth (9th) grade." + "val" : "Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization." }, - "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of lower secondary education in the United States." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of grades seven through nine socio-economic data item" + "val" : "is member of organization" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2009/10/01 Alan Ruttenberg. Barry prefers generic is-member-of. Question of what the range should be. For now organization. Is organization a population? Would the same relation be used to record members of a population" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "JZ: Discussed on May 7, 2012 OBI dev call. Bjoern points out that we need to allow for organizations to be members of organizations. And agreed by the other OBI developers. So, human and organization were specified in 'Domains'. The textual definition was updated based on it." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "Person:Alan Ruttenberg" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Helen Parkinson" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:27:15Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Helen Parkinson" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002052", - "lbl" : "highest level of education is grades 10 through 12 data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBI_0001688", + "lbl" : "has organization member", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of tenth (10th) through twelfth (12th) grade." + "val" : "Relating an organization to a legal person or organization." }, - "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of upper secondary education in the United States." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of grades ten through twelve socio-economic data item" + "val" : "has organization member" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "See tracker:\nhttps://sourceforge.net/tracker/index.php?func=detail&aid=3512902&group_id=177891&atid=886178" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:27:50Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person: Jie Zheng" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002053", - "lbl" : "highest level of education is completion of undergraduate degree data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000008", + "lbl" : "obsolete owns", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some undergraduate degree." - }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of some undergraduate degree socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:28:27Z" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000732" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002054", - "lbl" : "highest level of education is completion of graduate certificate or degree data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000009", + "lbl" : "obsolete administrates", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some graduate certificate or degree." - }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of some graduate degree socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:28:49Z" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000733" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002055", - "lbl" : "highest level of education is completion of vocaational education program data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000048", + "lbl" : "obsolete is owned by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some vocational education program." - }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of some vocational education program socio-economic data item" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Reinach, A. S�mtliche Werke. Texkritische Ausgabe, M�nchen: Philosophia Verlag, 1989, p.189-204." }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:29:28Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000735" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002056", - "lbl" : "highest level of education is completion of kindergarten data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000020", + "lbl" : "obsolete is-aggregate-of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "We anticipate BFO 2.0 including and defining this relation. When it does, we will obsolete this property and declare it equivalent to the BFO 2.0 relation.\n" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "BFO relation takes precedence." + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000021", + "lbl" : "obsolete is-component-of-aggregate", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "At the instance level, this relation is the named inverse of is-aggregate-of.\n\nAt the type level, however, not so.\n\nWe expect BFO 2.0 to have this relation as well, and we will obsolete this property and declare it equivalent to BFO's version when BFO 2.0 comes out." ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000068", + "lbl" : "is administered by", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000070", + "lbl" : "is enrolled in school", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000071", + "lbl" : "is admitted to hospital", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000167", + "lbl" : "provides service", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000247", + "lbl" : "is abuse of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is pre-kindergarten." + "val" : "Relation between an abusive behavior and one upon whom it is inflicted." }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates that a person has completed only early childhood education and nothing more." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of kindergarten socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:47:38Z" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002057", - "lbl" : "highest level of education is completion of pre-kindergarten data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000248", + "lbl" : "has aggressor", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is kindergarten." + "val" : "Relation between an abusive behavior and one who inflicts it upon someone or something else." }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of pre-kindergarten socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:48:10Z" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002058", - "lbl" : "linguistic literacy competence", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000260", + "lbl" : "lives in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A disposition borne by a human being that (1) has a linguistic competence as a dispositional part and (2) if realized, is realized by the bearer's achievement of some personal goal." + "val" : "A relation between a household and a material entity that the household stores their possessions in and sleeps in habitually." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000263", + "lbl" : "demarcates", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Relation in which a categorization scheme stands to each category into which it partitions things." }, - "comments" : [ "Other dispositions that it can and likely does have as dispositional parts include cultural competencies, interpersonal competencies, competencies for navigating a society's systems of laws, claims, obligations, deontic declarations, and norms of financial and other economic exchange.", "The realization of this disposition by definition realizes the bearer's linguistic competence that is a dispositional part of this disposition. The realization of the linguistic competence would be an occurrent part of the realization of this disposition (and not a temporal part).", "Whereas linguistic competence may be afforded to non-human agents, literacy is nearly always considered in the context of human beings." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "language literacy competence" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "human literacy" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "linguistic literacy" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jiang Bian" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Xi Yang" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Yonghui Wu" + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002059", - "lbl" : "caregiver role", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000264", + "lbl" : "demarcated by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A human social role that, if realized, is realized in providing assistance in the activities of daily living of another human being who possesses reduced capability to complete some of these activities alone." + "val" : "Relation in which a category stands to the categorization scheme that demarcates it as a category." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John Judkins" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" @@ -16003,20 +15147,17 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002060", - "lbl" : "family relationship", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000272", + "lbl" : "has primary data subject", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relational quality that inheres within two or more persons related as members of a domestic group, or a number of domestic groups linked through descent from a common ancestor, marriage, or adoption." + "val" : "Relation in which a data item stands to the person it is both about and primarily associated with." }, - "comments" : [ "We are also intending on including other family arrangements. This is something we are working on." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ERO_0002033" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" @@ -16026,6761 +15167,17495 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002061", - "lbl" : "monetary personal income data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000273", + "lbl" : "primary data subject of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A data item that is about the sum of earnings for some person(s) from various forms of payment or profits." + "val" : "The inverse of has primary data subject." }, - "comments" : [ "We use the phrase ‘some person’ in the definition because this class can be about an individual's or a household's earnings. Similarly, we use 'personal income' in the label because the term is typically restricted to individuals and households. This class is also restricted to being about monetary forms of income." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Examples of monetary forms of payment include: wages, salary, or tips; interest generated by capital; dividends earned; lottery, game, or contest monetary winnings; alimony; royalties; trusts; pensions; receipt of rental payments; unemployment payments; social security payments; worker's compensation; social security payments; or profit from entrepreneurial activities." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Chris Stoeckert" + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002062", - "lbl" : "concretization-utilization process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000275", + "lbl" : "has reporter", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Process in which some participant utilizes some specifically dependent continuant as a concretization of some generically dependent continuant." + "val" : "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." }, - "comments" : [ "Instances include any process that brings it about that some specifically dependent continuant begins to stand in a concretization relation to some generically dependent continuant, as well as any process in which someone makes use of a pre-established concretization relation. To be clear, instances do not include using concretizations of words or letters for purposes that do not make use of the concretization relations in which they stand (for example, hanging up a sign in a foreign language as a decoration because one likes the colors, despite having no idea what the sign says).", "Instances include, but are not limited to, processes that bring about cognitive concretizations." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Taking notes on a meeting is an example in which the concretization relation is newly established, since the SDCs that concretize the GDCs come into existence as the notes are written. In contrast, using slides prepared by someone else in order to convey information during a presentation is a case of using a concretization in which the performer neither brings the concretizing SDCs into existence nor is responsible for their standing in the concretization relation to the relevant GDCs. A nonlinguistic example is drawing the logo of one’s favorite brand, in which one creates a pattern that concretizes a GDC that is also concretized by patterns on products of the brand." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002063", - "lbl" : "linguistic concretization-utilization process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000276", + "lbl" : "reporter of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A concretization-utilization process in which the utilized specifically dependent continuant concretizes the generically dependent through use of some language." + "val" : "The inverse of has reporter." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002064", - "lbl" : "concretization-interpretation process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000052", + "lbl" : "characteristic of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Process in which some participant infers that some particular specifically dependent continuant stands in the concretization relation to some particular generically dependent continuant." + "val" : "a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence." }, - "comments" : [ "The interpretation need not be accurate. It may even be the case that the specifically dependent continuant has not previously concretized anything." ], + "comments" : [ "Note that this relation was previously called \"inheres in\", but was changed to be called \"characteristic of\" because BFO2 uses \"inheres in\" in a more restricted fashion. This relation differs from BFO2:inheres_in in two respects: (1) it does not impose a range constraint, and thus it allows qualities of processes, as well as of information entities, whereas BFO2 restricts inheres_in to only apply to independent continuants (2) it is declared functional, i.e. something can only be a characteristic of one thing." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "For example, reading a text message that says, “It is raining outside,” and inferring that the words on the screen are meant to convey information about the weather. The pattern on the screen that corresponds to the words is the SDC, and the ICE about the rain is the GDC. Or, hearing your spouse say, “Can you come to the kitchen?” and then knowing that your spouse wants you to come to the kitchen. You have interpreted the patterns of the sound as concretizing a GDC about what your spouse wants. Or, seeing a drawing of a basketball player and inferring—perhaps incorrectly—that it is of Michael Jordan." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "inheres in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this fragility is a characteristic of this vase" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this red color is a characteristic of this apple" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "inheres_in" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002065", - "lbl" : "linguistic concretization-interpretation process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000053", + "lbl" : "has characteristic", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A concretization-interpretation process in which the specifically dependent continuant is inferred to concretize the generically dependent continuant in a way that makes use of some language." + "val" : "Inverse of characteristic_of" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "bearer of" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this apple is bearer of this red color" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this vase is bearer of this fragility" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "bearer_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is bearer of" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002066", - "lbl" : "linguistic competence", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000056", + "lbl" : "participates in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A disposition that inheres in some material entity and is such that that, if realized, it is realized by either some linguistic concretization-utilization process or some linguistic concretization-interpretation process." + "val" : "a relation between a continuant and a process, in which the continuant is somehow involved in the process" }, - "comments" : [ "When realized in a concretization-utilization process, the only relevant concretization may in some cases be a cognitive one, but that suffices to realize a linguistic competence. For example, suppose one begins to write a letter, planning out the words ahead of time, but is interrupted before beginning to write and never resumes. During the process of planning out the words and what one intends to communicate, one is already concretizing words cognitively, as well as considering which combinations of words one can use to concretize additional generically dependent continuants. In doing so, one performs processes that realize one's linguistic competence, without producing any concretizations other than those cognitive ones." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "participates in" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this blood clot participates in this blood coagulation" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this input material (or this output material) participates in this process" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigator participates in this investigation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "participates_in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002068", - "lbl" : "communication", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000057", + "lbl" : "has_participant", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A process in which some participant shares some generically dependent continuant with some other participant. The former utilizes some specifically dependent continuant that concretizes the generically dependent continuant intended to be shared, while the latter interprets that specifically dependent continuant to concretize some particular generically dependent continuant, aiming to accurately infer the other participant’s intent." + "val" : "a relation between a process and a continuant, in which the continuant is somehow involved in the process" }, - "comments" : [ "For example, if you tell someone, “It is raining,” you produce sounds that have patterns that concretize information about the weather. Your utilization of that concretization is part of the communication. When the other person hears you, they interpret those patterns to concretize something, which may or may not be the same as what you intended to convey. In other words, they interpret the sounds you produce to have meanings associated with them, and that interpretation process is another part of the communication. If a process does not have a part of each type, it is not a communication.", "The interpretation need not correspond exactly to what was intended by the other participant.", "The term 'participant' in the definition need not refer to a human agent." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has participant" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this blood coagulation has participant this blood clot" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigation has participant this investigator" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this process has participant this input material (or this output material)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_participant" + }, { + "pred" : "http://purl.org/dc/elements/1.1/source", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:has_participant" + }, { + "pred" : "http://purl.org/dc/terms/source", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:has_participant" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002069", - "lbl" : "language", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000058", + "lbl" : "is concretized as", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A disposition that (i) is an aggregate of linguistic competences, considered as forming a distinct group on the basis of perceived common characteristics, such as mutual intelligibility among their bearers, in addition to historical or cultural factors; (ii) if realized, is realized in any and all realizations of those linguistic competences; and (iii) inheres in a linguistic community." + "val" : "A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is concretized as" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The journal article (a generically dependent continuant) is concretized as the quality (a specifically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002070", - "lbl" : "disclosure of preferred language", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000059", + "lbl" : "concretizes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A communication in which some participant states a preference for some communicative process to be in a certain language, via some concretization of some preferred language information content entity." + "val" : "A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "concretizes" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002071", - "lbl" : "preferred language information content entity", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000079", + "lbl" : "function of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An information content entity that is about some person and some language, and that conveys the language with which that person prefers to communicate within some given context." + "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" }, + "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this catalysis function is a function of this enzyme" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "function_of" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is function of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002072", - "lbl" : "role in human social processes", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000080", + "lbl" : "quality of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A role that inheres in some entity that is realized in a social act." + "val" : "a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence" }, - "comments" : [ "Previous definition: A role played by an entity in human social processes." ], + "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this red color is a quality of this apple" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/omrse/releases/2023-10-08/omrse.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A quality inheres in its bearer at all times for which the quality exists." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is quality of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "quality_of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000030", - "lbl" : "OOSTT user-centered description", + "id" : "http://purl.obolibrary.org/obo/RO_0000081", + "lbl" : "role of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A description of an OOSTT class that is aimed at the OOSTT user community and not meant to be definition for use in ontology development, curation or maintenance." + "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" }, + "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigator role is a role of this person" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is role of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "role_of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000074", - "lbl" : "academic degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000085", + "lbl" : "has function", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An information content entity that is the specified outcome of and documents the sucessful completion of a tertiary education program." + "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." }, { - "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", - "val" : "Recognized degree awarded after successful completion of a college or post-graduate porgram." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_function" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000081", - "lbl" : "associate degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000086", + "lbl" : "has quality", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree awarded by colleges and universities upon completion of a program of study lasting two years." + "val" : "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this apple has quality this red color" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/w/index.php?title=Associate_degree&oldid=723897149" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." }, { - "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", - "val" : "Recognition awarded after completion of a specific curriculum from an accredited tertiary education provider that falls between high school and bachelor's degree program." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_quality" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000082", - "lbl" : "master's degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000087", + "lbl" : "has role", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree awarded by universities upon completion of a course of study demonstrating a mastery or high-order overview of a specific field of study or area of professional practice.[1] Within the area studied, graduates are posited to possess advanced knowledge of a specialized body of theoretical and applied topics; high order skills in analysis, critical evaluation, or professional application; and the ability to solve complex problems and think rigorously and independently." + "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this person has role this investigator role (more colloquially: this person has this role of investigator)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/w/index.php?title=Master%27s_degree&oldid=726036185" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_role" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000083", - "lbl" : "bachelor's degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000091", + "lbl" : "has disposition", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree awarded by colleges and universities upon completion of a course of study lasting three to seven years." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/w/index.php?title=Bachelor%27s_degree&oldid=725713923" - } ] + "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" + } } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000084", - "lbl" : "bachelor's of nursing degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000092", + "lbl" : "disposition of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree in the science and principles of nursing, granted by an accredited tertiary education provider after the successful completion of a bachelor's of nursing program." + "val" : "inverse of has disposition" }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/w/index.php?title=Bachelor_of_Science_in_Nursing&oldid=725962822" - } ] + "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], + "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000086", - "lbl" : "master's in the science of nursing degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0001000", + "lbl" : "derives from", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree in the science and principles of nursing, granted by an accredited tertiary education provider after the successful completion of a master's of nursing program." + "val" : "a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this cell derives from this parent cell (cell division)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this nucleus derives from this parent nucleus (nuclear division)" }, { - "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", - "val" : "An advanced academic degree in the principles and practices of nursing, with a focus on administration, education, or advanced nursing practice, granted by an accredited college or university after the successful completion of a master's of nursing program." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "derives_from" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0000001", - "lbl" : "quality", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities", - "xrefs" : [ "PATOC:GVG" ] - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0000051", - "lbl" : "morphology", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0001001", + "lbl" : "derives into", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure." + "val" : "a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "morphology" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this parent cell derives into this cell (cell division)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this parent nucleus derives into this nucleus (nuclear division)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops into'. To avoid making statements about a future that may not come to pass, it is often better to use the backward-looking 'derives from' rather than the forward-looking 'derives into'." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "derives_into" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0000122", - "lbl" : "length", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0001015", + "lbl" : "location of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A 1-D extent quality which is equal to the distance between two points." + "val" : "a relation between two independent continuants, the location and the target, in which the target is entirely within the location" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "length" + "val" : "is location of" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my head is the location of my brain" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this cage is the location of this rat" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "location_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0000125", - "lbl" : "mass", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0001025", + "lbl" : "located in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter." + "val" : "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "mass" + "val" : "located in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0001018", - "lbl" : "physical quality", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "physical quality" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my brain is located in my head" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0001025", - "lbl" : "pressure", - "type" : "CLASS", - "meta" : { - "subsets" : [ "http://purl.org/obo/owl/obo#attribute_slim" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasDefinition", - "val" : "_:genid2147485205" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this rat is located in this cage" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasDefinition", - "val" : "_:genid2147485206" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "quality" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0001241", - "lbl" : "physical object quality", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A quality which inheres in a continuant." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "physical object quality" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/PCO_0000020", - "lbl" : "family", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A domestic group, or a number of domestic groups linked through descent (demonstrated or stipulated) from a common ancestor, marriage, or adoption." - }, - "comments" : [ "Family membership through marriage or adoption apply primarily to human families. In most species, family membership is defined by common anscestry." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "located_in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Needs axioms for family relationships." + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C25173" + "pred" : "http://purl.org/dc/elements/1.1/source", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:located_in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000052", - "lbl" : "characteristic of", + "id" : "http://purl.obolibrary.org/obo/RO_0002000", + "lbl" : "2D boundary of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence." + "val" : "a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity" }, - "comments" : [ "Note that this relation was previously called \"inheres in\", but was changed to be called \"characteristic of\" because BFO2 uses \"inheres in\" in a more restricted fashion. This relation differs from BFO2:inheres_in in two respects: (1) it does not impose a range constraint, and thus it allows qualities of processes, as well as of information entities, whereas BFO2 restricts inheres_in to only apply to independent continuants (2) it is declared functional, i.e. something can only be a characteristic of one thing." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "inheres in" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this fragility is a characteristic of this vase" + "val" : "the surface of my skin is a 2D boundary of my body" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this red color is a characteristic of this apple" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "inheres_in" + "val" : "2D_boundary_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "boundary of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is 2D boundary of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is boundary of" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000053", - "lbl" : "has characteristic", + "id" : "http://purl.obolibrary.org/obo/RO_0002002", + "lbl" : "has 2D boundary", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Inverse of characteristic_of" + "val" : "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "bearer of" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this apple is bearer of this red color" + "val" : "my body has 2D boundary the surface of my skin" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this vase is bearer of this fragility" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." + "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "bearer_of" + "val" : "has boundary" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is bearer of" + "val" : "has_2D_boundary" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000056", - "lbl" : "participates in", + "id" : "http://purl.obolibrary.org/obo/RO_0002012", + "lbl" : "occurrent part of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a continuant and a process, in which the continuant is somehow involved in the process" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "participates in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this blood clot participates in this blood coagulation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this input material (or this output material) participates in this process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigator participates in this investigation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "participates_in" - } ] + "val" : "A part of relation that applies only between occurrents." + } } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000057", - "lbl" : "has_participant", + "id" : "http://purl.obolibrary.org/obo/RO_0002013", + "lbl" : "has regulatory component activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a process and a continuant, in which the continuant is somehow involved in the process" + "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has participant" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this blood coagulation has participant this blood clot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigation has participant this investigator" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this process has participant this input material (or this output material)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_participant" - }, { - "pred" : "http://purl.org/dc/elements/1.1/source", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:has_participant" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.org/dc/terms/source", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:has_participant" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:30:46Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000058", - "lbl" : "is concretized as", + "id" : "http://purl.obolibrary.org/obo/RO_0002014", + "lbl" : "has negative regulatory component activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants." + "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." }, + "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is concretized as" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The journal article (a generically dependent continuant) is concretized as the quality (a specifically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:31:01Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000059", - "lbl" : "concretizes", + "id" : "http://purl.obolibrary.org/obo/RO_0002015", + "lbl" : "has positive regulatory component activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant." + "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." }, + "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "concretizes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:31:17Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", + "id" : "http://purl.obolibrary.org/obo/RO_0002017", + "lbl" : "has component activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], + "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this catalysis function is a function of this enzyme" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "function_of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is function of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:44:33Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000080", - "lbl" : "quality of", + "id" : "http://purl.obolibrary.org/obo/RO_0002018", + "lbl" : "has component process", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence" + "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this red color is a quality of this apple" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A quality inheres in its bearer at all times for which the quality exists." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is quality of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "quality_of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:49:21Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", + "id" : "http://purl.obolibrary.org/obo/RO_0002022", + "lbl" : "directly regulated by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], + "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigator role is a role of this person" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is role of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "role_of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-17T13:52:24Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", + "id" : "http://purl.obolibrary.org/obo/RO_0002023", + "lbl" : "directly negatively regulated by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" + "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", + "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_function" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-17T13:52:38Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000086", - "lbl" : "has quality", + "id" : "http://purl.obolibrary.org/obo/RO_0002024", + "lbl" : "directly positively regulated by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence" + "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", + "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this apple has quality this red color" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_quality" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-17T13:52:47Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", + "id" : "http://purl.obolibrary.org/obo/RO_0002025", + "lbl" : "has effector activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" + "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", + "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] }, + "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this person has role this investigator role (more colloquially: this person has this role of investigator)" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-22T14:14:36Z" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002081", + "lbl" : "before or simultaneous with", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "Primitive instance level timing relation between events" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_role" + "val" : "<=" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", + "id" : "http://purl.obolibrary.org/obo/RO_0002083", + "lbl" : "before", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } + "comments" : [ "t1 before t2 iff:= t1 before_or_simulataneous_with t2 and not (t1 simultaeous_with t2)" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", + "id" : "http://purl.obolibrary.org/obo/RO_0002086", + "lbl" : "ends after", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] + "comments" : [ "X ends_after Y iff: end(Y) before_or_simultaneous_with end(X)" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001000", - "lbl" : "derives from", + "id" : "http://purl.obolibrary.org/obo/RO_0002087", + "lbl" : "immediately preceded by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" - }, + "comments" : [ "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this cell derives from this parent cell (cell division)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this nucleus derives from this parent nucleus (nuclear division)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "starts_at_end_of" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002090", + "lbl" : "immediately precedes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ends_at_start_of" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "derives_from" + "val" : "meets" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002575", + "val" : "http://purl.obolibrary.org/obo/BFO_0000063" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001001", - "lbl" : "derives into", + "id" : "http://purl.obolibrary.org/obo/RO_0002131", + "lbl" : "overlaps", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" + "val" : "x overlaps y if and only if there exists some z such that x has part z and z part of y" }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this parent cell derives into this cell (cell division)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this parent nucleus derives into this nucleus (nuclear division)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops into'. To avoid making statements about a future that may not come to pass, it is often better to use the backward-looking 'derives from' rather than the forward-looking 'derives into'." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", + "val" : "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "derives_into" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001015", - "lbl" : "location of", + "id" : "http://purl.obolibrary.org/obo/RO_0002180", + "lbl" : "has component", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between two independent continuants, the location and the target, in which the target is entirely within the location" + "val" : "w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is location of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my head is the location of my brain" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this cage is the location of this rat" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" + "val" : "The definition of 'has component' is still under discussion. The challenge is in providing a definition that does not imply transitivity." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "location_of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "For use in recording has_part with a cardinality constraint, because OWL does not permit cardinality constraints to be used in combination with transitive object properties. In situations where you would want to say something like 'has part exactly 5 digit, you would instead use has_component exactly 5 digit." }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://ontologydesignpatterns.org/wiki/Submissions:Componency" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001025", - "lbl" : "located in", + "id" : "http://purl.obolibrary.org/obo/RO_0002211", + "lbl" : "regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" + "val" : "p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q." }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "located in" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0001-7476-6306" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my brain is located in my head" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-3837-8864" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this rat is located in this cage" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GO" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "located_in" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Regulation precludes parthood; the regulatory process may not be within the regulated process." }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "regulates (processual)" }, { - "pred" : "http://purl.org/dc/elements/1.1/source", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:located_in" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "false" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001900", - "lbl" : "temporal interpretation", + "id" : "http://purl.obolibrary.org/obo/RO_0002212", + "lbl" : "negatively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context." - } + "val" : "p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "negatively regulates (process to process)" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002211" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002000", - "lbl" : "2D boundary of", + "id" : "http://purl.obolibrary.org/obo/RO_0002213", + "lbl" : "positively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity" + "val" : "p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q." }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the surface of my skin is a 2D boundary of my body" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "2D_boundary_of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "boundary of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is 2D boundary of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is boundary of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "positively regulates (process to process)" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002211" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002002", - "lbl" : "has 2D boundary", + "id" : "http://purl.obolibrary.org/obo/RO_0002215", + "lbl" : "capable of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" + "val" : "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my body has 2D boundary the surface of my skin" + "val" : "mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "osteoclast SubClassOf 'capable of' some 'bone resorption'" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has boundary" + "val" : "has function realized in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_2D_boundary" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.ncbi.nlm.nih.gov/pubmed/20123131" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.ncbi.nlm.nih.gov/pubmed/21208450" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "For compatibility with BFO, this relation has a shortcut definition in which the expression \"capable of some P\" expands to \"bearer_of (some realized_by only P)\"." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002012", - "lbl" : "occurrent part of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A part of relation that applies only between occurrents." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", + "id" : "http://purl.obolibrary.org/obo/RO_0002216", + "lbl" : "capable of part of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." + "val" : "c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p." }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has function in" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ro/docs/reflexivity/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", + "id" : "http://purl.obolibrary.org/obo/RO_0002217", + "lbl" : "obsolete actively participates in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." + "val" : "OBSOLETE x actively participates in y if and only if x participates in y and x realizes some active role" }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], + "comments" : [ "Obsoleted as the inverse property was obsoleted." ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "agent in" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/RO_0002608" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", + "id" : "http://purl.obolibrary.org/obo/RO_0002218", + "lbl" : "obsolete has active participant", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." + "val" : "x has participant y if and only if x realizes some active role that inheres in y" }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "'heart development' has active participant some Shh protein" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This may be obsoleted and replaced by the original 'has agent' relation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has agent" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/ro.owl" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/RO_0002500" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", + "id" : "http://purl.obolibrary.org/obo/RO_0002222", + "lbl" : "temporally related to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], + "comments" : [ "A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations." ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/wiki/Allen%27s_interval_algebra" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." + }, { + "pred" : "http://purl.org/dc/terms/source", + "val" : "https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", + "id" : "http://purl.obolibrary.org/obo/RO_0002223", + "lbl" : "starts", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." + "val" : "inverse of starts with" }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Allen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002224", + "lbl" : "starts with", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], + "definition" : { + "val" : "x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "started by" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002229", + "lbl" : "ends", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). 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Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] + "val" : "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "starts with process that occurs in" } ] } }, { - 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"lbl" : "before", + "id" : "http://purl.obolibrary.org/obo/RO_0002233", + "lbl" : "has input", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "t1 before t2 iff:= t1 before_or_simulataneous_with t2 and not (t1 simultaeous_with t2)" ], - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "definition" : { + "val" : "p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "consumes" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Has_input" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002086", - "lbl" : "ends after", + "id" : "http://purl.obolibrary.org/obo/RO_0002234", + "lbl" : "has output", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "X ends_after Y iff: end(Y) before_or_simultaneous_with end(X)" ], - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "definition" : { + "val" : "p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "produces" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Has_output" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002087", - "lbl" : "immediately preceded by", + "id" : "http://purl.obolibrary.org/obo/RO_0002263", + "lbl" : "acts upstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" ], + "definition" : { + "val" : "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "starts_at_end_of" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://wiki.geneontology.org/index.php/Acts_upstream_of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002090", - "lbl" : "immediately precedes", + "id" : "http://purl.obolibrary.org/obo/RO_0002264", + "lbl" : "acts upstream of or within", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)" ], - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "definition" : { + "val" : "c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "affects" + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - 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"val" : "x overlaps y if and only if there exists some z such that x has part z and z part of y" + "val" : "p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "comments" : [ "holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002411" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", - "val" : "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)" + "pred" : "http://purl.org/dc/terms/creator", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Causally_upstream_of,_positive_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002180", - "lbl" : "has component", + "id" : "http://purl.obolibrary.org/obo/RO_0002305", + "lbl" : "causally upstream of, negative effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." + "val" : "p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The definition of 'has component' is still under discussion. The challenge is in providing a definition that does not imply transitivity." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "For use in recording has_part with a cardinality constraint, because OWL does not permit cardinality constraints to be used in combination with transitive object properties. In situations where you would want to say something like 'has part exactly 5 digit, you would instead use has_component exactly 5 digit." + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002411" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.org/dc/terms/creator", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:Componency" + "val" : "https://wiki.geneontology.org/Causally_upstream_of,_negative_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002211", - "lbl" : "regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002314", + "lbl" : "characteristic of part of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q." + "val" : "q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0001-7476-6306" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-3837-8864" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "inheres in part of" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GO" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Regulation precludes parthood; the regulatory process may not be within the regulated process." + "val" : "http://www.ncbi.nlm.nih.gov/pubmed/20064205" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "regulates (processual)" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "false" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ro/docs/reflexivity/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002212", - "lbl" : "negatively regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002323", + "lbl" : "mereotopologically related to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q." + "val" : "A mereological relationship or a topological relationship" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "negatively regulates (process to process)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002211" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002213", - "lbl" : "positively regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002327", + "lbl" : "enables", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q." + "val" : "c enables p iff c is capable of p and c acts to execute p." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a particular instances of akt-2 enables some instance of protein kinase activity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "catalyzes" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "positively regulates (process to process)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "executes" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002211" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is catalyzing" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is executing" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This relation differs from the parent relation 'capable of' in that the parent is weaker and only expresses a capability that may not be actually realized, whereas this relation is always realized." + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Enables" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002215", - "lbl" : "capable of", + "id" : "http://purl.obolibrary.org/obo/RO_0002328", + "lbl" : "functionally related to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. 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"val" : "For compatibility with BFO, this relation has a shortcut definition in which the expression \"capable of some P\" expands to \"bearer_of (some realized_by only P)\"." + "val" : "This is a grouping relation that collects relations used for the purpose of connecting structure and function" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002216", - "lbl" : "capable of part of", + "id" : "http://purl.obolibrary.org/obo/RO_0002329", + "lbl" : "part of structure that is capable of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p." + "val" : "this relation holds between c and p when c is part of some c', and c' is capable of p." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has function in" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/reflexivity/" + "val" : "false" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002217", - "lbl" : "obsolete actively participates in", + "id" : "http://purl.obolibrary.org/obo/RO_0002331", + "lbl" : "involved in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "OBSOLETE x actively participates in y if and only if x participates in y and x realizes some active role" + "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" }, - "comments" : [ "Obsoleted as the inverse property was obsoleted." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "agent in" + "val" : "actively involved in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/RO_0002608" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "enables part of" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Involved_in" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002218", - "lbl" : "obsolete has active participant", + "id" : "http://purl.obolibrary.org/obo/RO_0002333", + "lbl" : "enabled by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "x has participant y if and only if x realizes some active role that inheres in y" + "val" : "inverse of enables" }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "'heart development' has active participant some Shh protein" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - 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"comments" : [ "A relation that holds between two occurrents. 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Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." + "val" : "has member is a mereological relation between a collection and an item." }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "SIO" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "finished by" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002231", - "lbl" : "has start location", + "id" : "http://purl.obolibrary.org/obo/RO_0002352", + "lbl" : "input of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" + "val" : "inverse of has input" }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "starts with process that occurs in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002232", - "lbl" : "has end location", + "id" : "http://purl.obolibrary.org/obo/RO_0002353", + "lbl" : "output of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" + "val" : "inverse of has output" }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ends with process that occurs in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002233", - "lbl" : "has input", + "id" : "http://purl.obolibrary.org/obo/RO_0002404", + "lbl" : "causally downstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p." + "val" : "inverse of upstream of" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002405", + "lbl" : "immediately causally downstream of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "consumes" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Has_input" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002234", - "lbl" : "has output", + "id" : "http://purl.obolibrary.org/obo/RO_0002407", + "lbl" : "indirectly positively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p." + "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "produces" + "val" : "indirectly activates" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002579", + "val" : "http://purl.obolibrary.org/obo/RO_0002213" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Has_output" + "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002263", - "lbl" : "acts upstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002409", + "lbl" : "indirectly negatively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." + "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "indirectly inhibits" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002579", + "val" : "http://purl.obolibrary.org/obo/RO_0002212" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://wiki.geneontology.org/index.php/Acts_upstream_of" + "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002264", - "lbl" : "acts upstream of or within", + "id" : "http://purl.obolibrary.org/obo/RO_0002410", + "lbl" : "causally related to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process." + "val" : "relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause.", + "xrefs" : [ "https://en.wikipedia.org/wiki/Causality" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "affects" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A gene product that has some activity, where that activity may be a part of a pathway or upstream of the pathway." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative?\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002304", - "lbl" : "causally upstream of, positive effect", + "id" : "http://purl.obolibrary.org/obo/RO_0002411", + "lbl" : "causally upstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q." + "val" : "p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q." }, - "comments" : [ "holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y" ], "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "pred" : "http://purl.org/dc/terms/creator", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Causally_upstream_of,_positive_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002305", - "lbl" : "causally upstream of, negative effect", + "id" : "http://purl.obolibrary.org/obo/RO_0002412", + "lbl" : "immediately causally upstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q." + "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "pred" : "http://purl.org/dc/terms/creator", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Causally_upstream_of,_negative_effect" + "pred" : "http://purl.obolibrary.org/obo/RO_0002575", + "val" : "http://purl.obolibrary.org/obo/RO_0002411" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002314", - "lbl" : "characteristic of part of", + "id" : "http://purl.obolibrary.org/obo/RO_0002418", + "lbl" : "causally upstream of or within", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w." + "val" : "p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q." }, + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "affects" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of" + "val" : "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "inheres in part of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.ncbi.nlm.nih.gov/pubmed/20064205" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/reflexivity/" + "val" : "influences (processual)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002323", - "lbl" : "mereotopologically related to", + "id" : "http://purl.obolibrary.org/obo/RO_0002427", + "lbl" : "causally downstream of or within", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A mereological relationship or a topological relationship" + "val" : "inverse of causally upstream of or within" }, + "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", + "id" : "http://purl.obolibrary.org/obo/RO_0002428", + "lbl" : "involved in regulation of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." + "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a particular instances of akt-2 enables some instance of protein kinase activity" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "catalyzes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "executes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is catalyzing" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is executing" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This relation differs from the parent relation 'capable of' in that the parent is weaker and only expresses a capability that may not be actually realized, whereas this relation is always realized." - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002328", - "lbl" : "functionally related to", + "id" : "http://purl.obolibrary.org/obo/RO_0002429", + "lbl" : "involved in positive regulation of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities." + "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This is a grouping relation that collects relations used for the purpose of connecting structure and function" + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002428" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002329", - "lbl" : "part of structure that is capable of", + "id" : "http://purl.obolibrary.org/obo/RO_0002430", + "lbl" : "involved in negative regulation of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "this relation holds between c and p when c is part of some c', and c' is capable of p." + "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "false" + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002428" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", + "id" : "http://purl.obolibrary.org/obo/RO_0002431", + "lbl" : "involved in or involved in regulation of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" + "val" : "c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p" }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "OWL does not allow defining object properties via a Union" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "actively involved in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "enables part of" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" + "val" : "involved in or reguates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", + "id" : "http://purl.obolibrary.org/obo/RO_0002432", + "lbl" : "is active in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of enables" + "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", + "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], + "comments" : [ "" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "enables activity in" + } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A protein that enables activity in a cytosol." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "executes activity in" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" + "val" : "https://wiki.geneontology.org/Is_active_in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002334", - "lbl" : "regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002434", + "lbl" : "interacts with", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of regulates" + "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "in pairwise interaction with" + } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Considering relabeling as 'pairwise interacts with'" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "regulated by (processual)" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" + }, { + "pred" : "http://www.w3.org/2004/02/skos/core#closeMatch", + "val" : "http://purl.obolibrary.org/obo/MI_0914" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002335", - "lbl" : "negatively regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002436", + "lbl" : "molecularly interacts with", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of negatively regulates" + "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "binds" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "molecularly binds with" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ECO_0000353" + }, { + "pred" : "http://www.w3.org/2004/02/skos/core#closeMatch", + "val" : "http://purl.obolibrary.org/obo/MI_0915" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002336", - "lbl" : "positively regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002447", + "lbl" : "phosphorylates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "inverse of positively regulates" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Axiomatization to GO to be added later" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002350", - "lbl" : "member of", + "id" : "http://purl.obolibrary.org/obo/RO_0002448", + "lbl" : "directly regulates activity of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "is member of is a mereological relation between a item and a collection." + "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "molecularly controls" + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "An organism that is a member of a population of organisms" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is member of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "member part of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "SIO" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002351", - "lbl" : "has member", + "id" : "http://purl.obolibrary.org/obo/RO_0002449", + "lbl" : "directly negatively regulates activity of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "has member is a mereological relation between a collection and an item." + "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "molecularly decreases activity of" + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "SIO" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "directly inhibits" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002352", - "lbl" : "input of", + "id" : "http://purl.obolibrary.org/obo/RO_0002450", + "lbl" : "directly positively regulates activity of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of has input" + "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "molecularly increases activity of" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "directly activates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002353", - "lbl" : "output of", + "id" : "http://purl.obolibrary.org/obo/RO_0002464", + "lbl" : "helper property (not for use in curation)", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "inverse of has output" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002404", - "lbl" : "causally downstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002479", + "lbl" : "has part that occurs in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of upstream of" + "val" : "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000428" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002481", + "lbl" : "is kinase activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000428" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002500", + "lbl" : "causal agent in process", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." + "val" : "A relationship between a material entity and a process where the material entity has some causal role that influences the process" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "indirectly activates" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0002579", - "val" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002501", + "lbl" : "causal relation between processes", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." + "val" : "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "indirectly inhibits" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0002579", - "val" : "http://purl.obolibrary.org/obo/RO_0002212" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002502", + "lbl" : "depends on", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" + "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002410", - "lbl" : "causally related to", + "id" : "http://purl.obolibrary.org/obo/RO_0002506", + "lbl" : "causal relation between entities", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause.", - "xrefs" : [ "https://en.wikipedia.org/wiki/Causality" ] - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative?\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." + "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002411", - "lbl" : "causally upstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002559", + "lbl" : "causally influenced by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "causally influenced by (entity-centric)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002563", + "lbl" : "interaction relation helper property", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0002575", - "val" : "http://purl.obolibrary.org/obo/RO_0002411" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002418", - "lbl" : "causally upstream of or within", + "id" : "http://purl.obolibrary.org/obo/RO_0002564", + "lbl" : "molecular interaction relation helper property", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q." - }, - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "affects" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "influences (processual)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002427", - "lbl" : "causally downstream of or within", + "id" : "http://purl.obolibrary.org/obo/RO_0002566", + "lbl" : "causally influences", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of causally upstream of or within" + "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "causally influences (entity-centric)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002428", - "lbl" : "involved in regulation of", + "id" : "http://purl.obolibrary.org/obo/RO_0002578", + "lbl" : "directly regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" + "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "directly regulates (processual)" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002575", + "val" : "http://purl.obolibrary.org/obo/RO_0002211" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", + "id" : "http://purl.obolibrary.org/obo/RO_0002584", + "lbl" : "has part structure that is capable of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" + "val" : "s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p" }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", + "id" : "http://purl.obolibrary.org/obo/RO_0002595", + "lbl" : "causal relation between material entity and a process", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" + "val" : "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002431", - "lbl" : "involved in or involved in regulation of", + "id" : "http://purl.obolibrary.org/obo/RO_0002596", + "lbl" : "capable of regulating", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p" + "val" : "Holds between c and p if and only if c is capable of some activity a, and a regulates p." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "OWL does not allow defining object properties via a Union" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "pyrethroid -> growth" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "involved in or reguates" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", + "id" : "http://purl.obolibrary.org/obo/RO_0002597", + "lbl" : "capable of negatively regulating", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] + "val" : "Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p." }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A protein that enables activity in a cytosol." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "executes activity in" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", + "id" : "http://purl.obolibrary.org/obo/RO_0002598", + "lbl" : "capable of positively regulating", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." + "val" : "Holds between c and p if and only if c is capable of some activity a, and a positively regulates p." }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "renin -> arteriolar smooth muscle contraction" }, { - "pred" : "http://www.w3.org/2004/02/skos/core#closeMatch", - "val" : "http://purl.obolibrary.org/obo/MI_0914" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", + "id" : "http://purl.obolibrary.org/obo/RO_0002608", + "lbl" : "process has causal agent", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." + "val" : "Inverse of 'causal agent in process'" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "binds" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "molecularly binds with" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - }, { - "pred" : "http://www.w3.org/2004/02/skos/core#closeMatch", - "val" : "http://purl.obolibrary.org/obo/MI_0915" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", + "id" : "http://purl.obolibrary.org/obo/RO_0002629", + "lbl" : "directly positively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { + "definition" : { + "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "directly positively regulates (process to process)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002578" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Directly_positively_regulates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", + "id" : "http://purl.obolibrary.org/obo/RO_0002630", + "lbl" : "directly negatively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." + "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-4639-4431" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "directly negatively regulates (process to process)" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002578" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", + "id" : "http://purl.obolibrary.org/obo/RO_0003000", + "lbl" : "produces", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." + "val" : "a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix." }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ], + "comments" : [ "Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue." ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-4639-4431" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "directly inhibits" + "val" : "https://orcid.org/0000-0001-9114-8737" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", + "id" : "http://purl.obolibrary.org/obo/RO_0003001", + "lbl" : "produced by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." + "val" : "a produced_by b iff some process that occurs_in b has_output a." }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-4639-4431" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "directly activates" + "val" : "https://orcid.org/0000-0001-9114-8737" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", + "id" : "http://purl.obolibrary.org/obo/RO_0004028", + "lbl" : "realized in response to stimulus", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { + "definition" : { + "val" : "A relationship between a realizable entity R (e.g. function or disposition) and a material entity M where R is realized in response to a process that has an input stimulus of M." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-12-26T19:45:49Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002479", - "lbl" : "has part that occurs in", + "id" : "http://purl.obolibrary.org/obo/RO_0004031", + "lbl" : "enables subfunction", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." + "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-25T23:20:13Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", + "id" : "http://purl.obolibrary.org/obo/RO_0004032", + "lbl" : "acts upstream of or within, positive effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002264" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" - } ] + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-26T23:49:30Z" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002500", - "lbl" : "causal agent in process", + "id" : "http://purl.obolibrary.org/obo/RO_0004033", + "lbl" : "acts upstream of or within, negative effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A relationship between a material entity and a process where the material entity has some causal role that influences the process" - }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002264" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-26T23:49:51Z" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002501", - "lbl" : "causal relation between processes", + "id" : "http://purl.obolibrary.org/obo/RO_0004034", + "lbl" : "acts upstream of, positive effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." + "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002263" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-26T23:53:14Z" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002502", - "lbl" : "depends on", + "id" : "http://purl.obolibrary.org/obo/RO_0004035", + "lbl" : "acts upstream of, negative effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { + "definition" : { + "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002263" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-26T23:53:22Z" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/BFO_0000169" + "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", + "id" : "http://purl.obolibrary.org/obo/RO_0004046", + "lbl" : "causally upstream of or within, negative effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002418" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-03-13T23:55:05Z" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Causally_upstream_of_or_within,_negative_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", + "id" : "http://purl.obolibrary.org/obo/RO_0004047", + "lbl" : "causally upstream of or within, positive effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002418" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-03-13T23:55:19Z" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "causally influenced by (entity-centric)" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Causally_upstream_of_or_within,_positive_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", + "id" : "http://purl.obolibrary.org/obo/RO_0004096", + "lbl" : "DEPRECATED inheres in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] + "comments" : [ "DEPRECATED This relation is similar to but different in important respects to the characteristic-of relation. See comments on that relation for more information." ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", + "id" : "http://purl.obolibrary.org/obo/RO_0004097", + "lbl" : "DEPRECATED bearer of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - } ] + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", + "id" : "http://purl.obolibrary.org/obo/RO_0009501", + "lbl" : "realized in response to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." + "val" : "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r." }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "triggered by process", + "xrefs" : [ "https://orcid.org/0000-0002-6601-2165" ] + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "An inflammatory disease that is realized in response to an inflammatory process occurring in the gut (which is itself the realization of a process realized in response to harmful stimuli in the mucosal lining of th gut)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph." + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-6996-0040" + }, { + "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - 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"val" : "http://www.jbiomedsem.com/content/4/1/43" + "val" : "[072-ISO]" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0010002", + "lbl" : "is carrier of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." + "val" : "*b* is carrier of *c* at time *t* if and only if *c* *g-depends on* *b* at *t*" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Molecules of DNA are carriers of genetic information." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "This copy of *War and Peace* is carrier of the novel written by Tolstoy." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "directly regulates (processual)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "This hard drive is carrier of these data items." }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0002575", - "val" : "http://purl.obolibrary.org/obo/RO_0002211" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "[072-ISO]" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002581", - "lbl" : "is a defining property chain axiom", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "If R <- P o Q is a defining property chain axiom, then it also holds that R -> P o Q. Note that this cannot be expressed directly in OWL" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002582", - "lbl" : "is a defining property chain axiom where second argument is reflexive", + "id" : "http://purl.obolibrary.org/obo/RO_0011002", + "lbl" : "regulates activity of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "If R <- P o Q is a defining property chain axiom, then (1) R -> P o Q holds and (2) Q is either reflexive or locally reflexive. A corollary of this is that P SubPropertyOf R." - } + "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002584", - "lbl" : "has part structure that is capable of", + "id" : "http://purl.obolibrary.org/obo/RO_0012011", + "lbl" : "indirectly causally upstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p" + "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0003-1813-6857" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2022-09-26T06:07:17Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002595", - "lbl" : "causal relation between material entity and a process", + "id" : "http://purl.obolibrary.org/obo/RO_0012012", + "lbl" : "indirectly regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." + "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0003-1813-6857" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2022-09-26T06:08:01Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002596", - "lbl" : "capable of regulating", + "id" : "http://purl.obolibrary.org/obo/RO_0017001", + "lbl" : "device utilizes material", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Holds between c and p if and only if c is capable of some activity a, and a regulates p." + "val" : "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." }, + "synonyms" : [ { + "pred" : "hasBroadSynonym", + "val" : "utilizes" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "pyrethroid -> growth" + "val" : "A diagnostic testing device utilizes a specimen." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "See github ticket https://github.com/oborel/obo-relations/issues/497" + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-9625-1899" + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0003-2620-0345" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002597", - "lbl" : "capable of negatively regulating", + "id" : "http://purl.obolibrary.org/obo/RO_0019000", + "lbl" : "regulates characteristic", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p." + "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-8688-6599" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002598", - "lbl" : "capable of positively regulating", + "id" : "http://purl.obolibrary.org/obo/RO_0019001", + "lbl" : "positively regulates characteristic", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Holds between c and p if and only if c is capable of some activity a, and a positively regulates p." + "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "renin -> arteriolar smooth muscle contraction" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-8688-6599" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002608", - "lbl" : "process has causal agent", + "id" : "http://purl.obolibrary.org/obo/RO_0019002", + "lbl" : "negatively regulates characteristic", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Inverse of 'causal agent in process'" + "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-8688-6599" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", + "id" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000004", + "lbl" : "has measurement value", + "type" : "PROPERTY", + "propertyType" : "DATA" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000404", + "lbl" : "has x coordinate value", + "type" : "PROPERTY", + "propertyType" : "DATA" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000405", + "lbl" : "has z coordinate value", + "type" : "PROPERTY", + "propertyType" : "DATA" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000406", + "lbl" : "has y coordinate value", + "type" : "PROPERTY", + "propertyType" : "DATA" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000136", + "lbl" : "date", "type" : "PROPERTY", + "propertyType" : "DATA", "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "directly positively regulates (process to process)" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] + "comments" : [ "The only valid string values for this property are ISO 8601 formatted date strings in extended form. It is allowable specify only the year, e.g. '2016' but only when the 1D temporal region references the entire year. Ditto for month, e.g. 2016-04 is acceptable but only if it references the entire interval of that month." ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000137", + "lbl" : "time of day", "type" : "PROPERTY", + "propertyType" : "DATA", "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "directly negatively regulates (process to process)" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "time" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0003000", - "lbl" : "produces", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000002", + "lbl" : "example to be eventually removed", + "type" : "INDIVIDUAL", "meta" : { - "definition" : { - "val" : "a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix." - }, - "comments" : [ "Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue." ], - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0001-9114-8737" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "example to be eventually removed" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0003001", - "lbl" : "produced by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000103", + "lbl" : "failed exploratory term", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "a produced_by b iff some process that occurs_in b has_output a." + "val" : "The term was used in an attempt to structure part of the ontology but in retrospect failed to do a good job" }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "failed exploratory term" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0001-9114-8737" + "val" : "Person:Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004028", - "lbl" : "realized in response to stimulus", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000120", + "lbl" : "metadata complete", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "A relationship between a realizable entity R (e.g. function or disposition) and a material entity M where R is realized in response to a process that has an input stimulus of M." + "val" : "Class has all its metadata, but is either not guaranteed to be in its final location in the asserted IS_A hierarchy or refers to another class that is not complete." }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-12-26T19:45:49Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "metadata complete" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000121", + "lbl" : "organizational term", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." + "val" : "Term created to ease viewing/sort terms for development purpose, and will not be included in a release" }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "organizational term" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000122", + "lbl" : "ready for release", + "type" : "INDIVIDUAL", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], + "definition" : { + "val" : "Class has undergone final review, is ready for use, and will be included in the next release. Any class lacking \"ready_for_release\" should be considered likely to change place in hierarchy, have its definition refined, or be obsoleted in the next release. Those classes deemed \"ready_for_release\" will also derived from a chain of ancestor classes that are also \"ready_for_release.\"" + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ready for release" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000123", + "lbl" : "metadata incomplete", + "type" : "INDIVIDUAL", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], + "definition" : { + "val" : "Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "metadata incomplete" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000124", + "lbl" : "uncurated", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" + "val" : "Nothing done yet beyond assigning a unique class ID and proposing a preferred term." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "uncurated" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000125", + "lbl" : "pending final vetting", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" + "val" : "All definitions, placement in the asserted IS_A hierarchy and required minimal metadata are complete. The class is awaiting a final review by someone other than the term editor." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "pending final vetting" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004046", - "lbl" : "causally upstream of or within, negative effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000224", + "lbl" : "obsolete_core", + "type" : "INDIVIDUAL", "meta" : { + "definition" : { + "val" : "Core is an instance of a grouping of terms from an ontology or ontologies. It is used by the ontology to identify main classes." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Alan Ruttenberg" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-03-13T23:55:05Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Causally_upstream_of_or_within,_negative_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000226", + "lbl" : "placeholder removed", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "placeholder removed" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004047", - "lbl" : "causally upstream of or within, positive effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000227", + "lbl" : "terms merged", + "type" : "INDIVIDUAL", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "terms merged" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-03-13T23:55:19Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "An editor note should explain what were the merged terms and the reason for the merge." + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000228", + "lbl" : "term imported", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term imported" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Causally_upstream_of_or_within,_positive_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is to be used when the original term has been replaced by a term imported from an other ontology. An editor note should indicate what is the URI of the new term to use." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004096", - "lbl" : "DEPRECATED inheres in", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000229", + "lbl" : "term split", + "type" : "INDIVIDUAL", "meta" : { - "comments" : [ "DEPRECATED This relation is similar to but different in important respects to the characteristic-of relation. See comments on that relation for more information." ], - "deprecated" : true + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term split" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is to be used when a term has been split in two or more new terms. An editor note should indicate the reason for the split and indicate the URIs of the new terms created." + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004097", - "lbl" : "DEPRECATED bearer of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000230", + "lbl" : "obsolete_other", + "type" : "INDIVIDUAL", "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is to be used if none of the existing instances cover the reason for obsolescence. An editor note should indicate this new reason." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "We expect to be able to mine these new reasons and add instances as required." + } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0009501", - "lbl" : "realized in response to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000410", + "lbl" : "universal", + "type" : "INDIVIDUAL", "meta" : { - "definition" : { - "val" : "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "triggered by process", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165" ] - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "An inflammatory disease that is realized in response to an inflammatory process occurring in the gut (which is itself the realization of a process realized in response to harmful stimuli in the mucosal lining of th gut)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph." - }, { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0001-6996-0040" - }, { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "universal" }, { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Hard to give a definition for. Intuitively a \"natural kind\" rather than a collection of any old things, which a class is able to be, formally. At the meta level, universals are defined as positives, are disjoint with their siblings, have single asserted parents." }, { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8461-9745" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://docs.google.com/document/d/1KWhZxVBhIPkV6_daHta0h6UyHbjY2eIrnON1WIRGgdY/edit" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "A Formal Theory of Substances, Qualities, and Universals, http://ontology.buffalo.edu/bfo/SQU.pdf" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0010001", - "lbl" : "generically depends on", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000420", + "lbl" : "defined class", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "A generically dependent continuant *b* generically depends on an independent continuant *c* at time *t* means: there inheres in *c* a specifically deendent continuant which concretizes *b* at *t*." + "val" : "A defined class is a class that is defined by a set of logically necessary and sufficient conditions but is not a universal" }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "g-depends on" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Genetic information generically depend on molecules of DNA." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The novel *War and Peace* generically depends on this copy of the novel." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The pattern shared by chess boards generically depends on any chess board." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The score of a symphony g-depends on a copy of the score." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "defined class" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This pdf file generically depends on this server." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "\"definitions\", in some readings, always are given by necessary and sufficient conditions. So one must be careful (and this is difficult sometimes) to distinguish between defined classes and universal." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "[072-ISO]" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0010002", - "lbl" : "is carrier of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000421", + "lbl" : "named class expression", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "*b* is carrier of *c* at time *t* if and only if *c* *g-depends on* *b* at *t*" + "val" : "A named class expression is a logical expression that is given a name. The name can be used in place of the expression." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Molecules of DNA are carriers of genetic information." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This copy of *War and Peace* is carrier of the novel written by Tolstoy." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "named class expression" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This hard drive is carrier of these data items." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "named class expressions are used in order to have more concise logical definition but their extensions may not be interesting classes on their own. In languages such as OWL, with no provisions for macros, these show up as actuall classes. Tools may with to not show them as such, and to replace uses of the macros with their expansions" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "[072-ISO]" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000423", + "lbl" : "to be replaced with external ontology term", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." + "val" : "Terms with this status should eventually replaced with a term from another ontology." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "to be replaced with external ontology term" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-4639-4431" + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "group:OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000428", + "lbl" : "requires discussion", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." + "val" : "A term that is metadata complete, has been reviewed, and problems have been identified that require discussion before release. Such a term requires editor note(s) to identify the outstanding issues." }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "requires discussion" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "group:OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMO_0001000", + "lbl" : "out of scope", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." + "val" : "The term was added to the ontology on the assumption it was in scope, but it turned out later that it was not." }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This obsolesence reason should be used conservatively. Typical valid examples are: un-necessary grouping classes in disease ontologies, a phenotype term added on the assumption it was a disease." }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "http://orcid.org/0000-0001-5208-3432" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/77" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "https://orcid.org/0000-0001-5208-3432" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0017001", - "lbl" : "device utilizes material", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMO_0001002", + "lbl" : "domain entity does not exist", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." + "val" : "The term was added to the ontology on the assumption it was a valid domain entity, but it turns out the entity does not exist in reality." }, - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "utilizes" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A diagnostic testing device utilizes a specimen." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This obsolesence reason should be used conservatively. For example: Obsoleting class that describes a breed of cow based on a record in an existing database, that was later retracted as faulty (breed does not exist). Do not use this term to obsolete a historic concept (that was once valid, but not anymore). " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0001-9625-1899" + "val" : "http://orcid.org/0000-0002-4142-7153" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-2620-0345" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/136" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "https://orcid.org/0000-0002-4142-7153" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000508", + "lbl" : "Abkhazian", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Аҧсуа 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"http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Chuang" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Vahcuengh" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "話僮" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002025", + "val" : "za" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "zha" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "zha" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000920", + "lbl" : "Zulu", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "isiZulu" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002025", + "val" : "zu" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "zul" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "zul" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000921", + "lbl" : "Zuni", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Shiwi'ma" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "zun" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "zun" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000922", + "lbl" : "Zaza", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Dimili" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Dimli" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Kirdki" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Kirmanjki" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Zazaki" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "zza" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "zza" + } ] + } + }, { + "id" : "http://protege.stanford.edu/plugins/owl/protege#defaultLanguage", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000179", + "lbl" : "BFO OWL specification label", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Really of interest to developers only" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000180", + "lbl" : "BFO CLIF specification label", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Really of interest to developers only" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000111", + "lbl" : "editor preferred term", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "editor preferred term" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000112", + "lbl" : "example of usage", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "example of usage" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000113", + "lbl" : "in branch", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An annotation property indicating which module the terms belong to. This is currently experimental and not implemented yet." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "in branch" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "GROUP:OBI" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "OBI_0000277" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000114", + "lbl" : "has curation status", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has curation status" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Bill Bug" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000115", + "lbl" : "textual definition", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "definition" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2012-04-05: \nBarry Smith\n\nThe official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.\n\nCan you fix to something like:\n\nA statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.\n\nAlan Ruttenberg\n\nYour proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. \n\nOn the specifics of the proposed definition:\n\nWe don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. \n\nPersonally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. \n\nWe also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2012-04-05: \nBarry Smith\n\nThe official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.\n\nCan you fix to something like:\n\nA statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.\n\nAlan Ruttenberg\n\nYour proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. \n\nOn the specifics of the proposed definition:\n\nWe don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. \n\nPersonally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. \n\nWe also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with. " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000116", + "lbl" : "editor note", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "editor note" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000117", + "lbl" : "term editor", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term editor" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000118", + "lbl" : "alternative term", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A label for a class or property that can be used to refer to the class or property instead of the preferred rdfs:label. Alternative labels should be used to indicate community- or context-specific labels, abbreviations, shorthand forms and the like." + }, + "comments" : [ "Consider re-defing to: An alternative name for a class or property which can mean the same thing as the preferred name (semantically equivalent, narrow, broad or related)." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "alternative label" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "OBO Operations committee" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000119", + "lbl" : "definition source", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "definition source" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000231", + "lbl" : "has obsolescence reason", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an annotation property to an obsolescence reason. The values of obsolescence reasons come from a list of predefined terms, instances of the class obsolescence reason specification." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has obsolescence reason" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000232", + "lbl" : "curator note", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An administrative note of use for a curator but of no use for a user" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "curator note" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000233", + "lbl" : "term tracker item", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An IRI or similar locator for a request or discussion of an ontology term." + }, + "comments" : [ "The 'tracker item' can associate a tracker with a specific ontology term." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term tracker item" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the URI for an OBI Terms ticket at sourceforge, such as https://sourceforge.net/p/obi/obi-terms/772/" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000234", + "lbl" : "ontology term requester", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "The name of the person, project, or organization that motivated inclusion of an ontology term by requesting its addition." + }, + "comments" : [ "The 'term requester' can credit the person, organization or project who request the ontology term." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ontology term requester" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000411", + "lbl" : "is denotator type", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an class defined in an ontology, to the type of it's denotator" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is denotator type" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "In OWL 2 add AnnotationPropertyRange('is denotator type' 'denotator type')" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000412", + "lbl" : "imported from", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "For external terms/classes, the ontology from which the term was imported" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "imported from" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000424", + "lbl" : "expand expression to", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A macro expansion tag applied to an object property (or possibly a data property) which can be used by a macro-expansion engine to generate more complex expressions from simpler ones" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "expand expression to" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "ObjectProperty: RO_0002104\nLabel: has plasma membrane part\nAnnotations: IAO_0000424 \"http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"\n" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000425", + "lbl" : "expand assertion to", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A macro expansion tag applied to an annotation property which can be expanded into a more detailed axiom." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "expand assertion to" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "ObjectProperty: RO???\nLabel: spatially disjoint from\nAnnotations: expand_assertion_to \"DisjointClasses: (http://purl.obolibrary.org/obo/BFO_0000051 some ?X) (http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"\n" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000426", + "lbl" : "first order logic expression", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "first order logic expression" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000427", + "lbl" : "antisymmetric property", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Use boolean value xsd:true to indicate that the property is an antisymmetric property" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "antisymmetric property" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "part_of antisymmetric property xsd:true" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000589", + "lbl" : "OBO foundry unique label", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An alternative name for a class or property which is unique across the OBO Foundry." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "OBO foundry unique label" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools ." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Mungall" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBO Foundry " + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000596", + "lbl" : "has ID digit count", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an ontology used to record id policy to the number of digits in the URI. The URI is: the 'has ID prefix\" annotation property value concatenated with an integer in the id range (left padded with \"0\"s to make this many digits)" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ID digit count" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000597", + "lbl" : "has ID range allocated to", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates a datatype that encodes a range of integers to the name of the person or organization who can use those ids constructed in that range to define new terms" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ID range allocated" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Datatype: idrange:1\nAnnotations: 'has ID range allocated to': \"Chris Mungall\"\nEquivalentTo: xsd:integer[> 2151 , <= 2300]\n" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000598", + "lbl" : "has ID policy for", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relating an ontology used to record id policy to the ontology namespace whose policy it manages" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ID policy for" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000599", + "lbl" : "has ID prefix", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an ontology used to record id policy to a prefix concatenated with an integer in the id range (left padded with \"0\"s to make this many digits) to construct an ID for a term being created." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ID prefix" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000600", + "lbl" : "elucidation", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "elucidation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Barry Smith" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000601", + "lbl" : "has associated axiom(nl)", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has associated axiom(nl)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An axiom associated with a term expressed using natural language" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000602", + "lbl" : "has associated axiom(fol)", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has associated axiom(fol)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An axiom expressed in first order logic using CLIF syntax" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000603", + "lbl" : "is allocated id range", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an ontology IRI to an (inclusive) range of IRIs in an OBO name space. The range is give as, e.g. \"IAO_0020000-IAO_0020999\"" + }, + "comments" : [ "Add as annotation triples in the granting ontology" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is allocated id range" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000604", + "lbl" : "retired from use as of", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "relates a class of CRID to the date after which further instances should not be made, according to the central authority" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "retired from use as of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "In OWL 2 add AnnotationPropertyRange xsd:dateTimeStamp" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000700", + "lbl" : "has ontology root term", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Ontology annotation property. Relates an ontology to a term that is a designated root term of the ontology. Display tools like OLS can use terms annotated with this property as the starting point for rendering the ontology class hierarchy. There can be more than one root." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ontology root term" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Nicolas Matentzoglu" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0006011", + "lbl" : "may be identical to", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A annotation relationship between two terms in an ontology that may refer to the same (natural) type but where more evidence is required before terms are merged." + }, + "comments" : [ "Edges asserting this should be annotated with to record evidence supporting the assertion and its provenance." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "may be identical to" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "#40" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "VFB" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0006012", + "lbl" : "scheduled for obsoletion on or after", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Used when the class or object is scheduled for obsoletion/deprecation on or after a particular date." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "scheduled for obsoletion on or after" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall, Jie Zheng" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/15532" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/32" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "GO ontology" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0010000", + "lbl" : "has axiom label", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has axiom id" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A URI that is intended to be unique label for an axiom used for tracking change to the ontology. For an axiom expressed in different languages, each expression is given the same URI" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0020019", + "lbl" : "IUI", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "comments" : [ "An annotation to be applied to individuals only. Value is a GUID/UUID for use in a referent tracking system." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "instance unique identifier" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0100001", + "lbl" : "term replaced by", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Use on obsolete terms, relating the term to another term that can be used as a substitute" + }, + "comments" : [ "Add as annotation triples in the granting ontology" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term replaced by" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OAE_0004334", + "lbl" : "has_MedDRA_id", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/OMO_0001001", + "lbl" : "logical characteristic of object property", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "This is an annotation used on an object property to indicate a logical characterstic beyond what is possible in OWL." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "OBO Operations call" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "http://orcid.org/0000-0001-5208-3432" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMO_0002000", + "lbl" : "defined by construct", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Links an annotation property to a SPARQL CONSTRUCT query which is meant to provide semantics for a shortcut relation." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "'part disjoint with' 'defined by construct' \"\"\"\n PREFIX owl: \n PREFIX : P o Q. Note that this cannot be expressed directly in OWL" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002582", + "lbl" : "is a defining property chain axiom where second argument is reflexive", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "If R <- P o Q is a defining property chain axiom, then (1) R -> P o Q holds and (2) Q is either reflexive or locally reflexive. A corollary of this is that P SubPropertyOf R." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0004049", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0004050", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0040042", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/valid_for_go_gp2term", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/valid_for_go_ontology", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/valid_for_gocam", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : 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"http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000103", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000902", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000103", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000903", "pred" : "type", - "obj" : "http://www.w3.org/2002/07/owl#Thing" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000120", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000904", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000121", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000905", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000122", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000906", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000123", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000907", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000124", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000908", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000125", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000909", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000226", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000910", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000226", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000911", "pred" : "type", - "obj" : "http://www.w3.org/2002/07/owl#Thing" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000227", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000912", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000228", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000913", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000229", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000914", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000410", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000915", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000409" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000420", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000916", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000409" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000421", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000917", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000409" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000423", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000918", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000428", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000919", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/OMO_0001000", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000920", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/OMO_0001002", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000921", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" + }, { + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000922", + "pred" : "type", + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { "sub" : "http://purl.obolibrary.org/obo/BFO_0000050", "pred" : "subPropertyOf", @@ -22873,6 +32748,10 @@ "sub" : "http://purl.obolibrary.org/obo/IAO_0021012", "pred" : "subPropertyOf", "obj" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty" + }, { + "sub" : "http://purl.obolibrary.org/obo/OBIB_0000732", + "pred" : "subPropertyOf", + "obj" : "http://www.w3.org/2002/07/owl#topObjectProperty" }, { "sub" : "http://purl.obolibrary.org/obo/OBI_0000293", "pred" : "subPropertyOf", @@ -23533,6 +33412,18 @@ "sub" : "http://purl.obolibrary.org/obo/IAO_0000418", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/IAO_0000419" + }, { + "sub" : "http://purl.obolibrary.org/obo/OBIB_0000732", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/OBIB_0000735" + }, { + "sub" : "http://purl.obolibrary.org/obo/OBI_0000299", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/OBI_0000312" + }, { + "sub" : "http://purl.obolibrary.org/obo/OBI_0000846", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/OBI_0001688" }, { "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000263", "pred" : "inverseOf", @@ -24016,6 +33907,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/OBI_0000299", "domainClassIds" : [ "http://purl.obolibrary.org/obo/OBI_0000011" ] + }, { + "predicateId" : "http://purl.obolibrary.org/obo/OBI_0001688", + "domainClassIds" : [ "http://purl.obolibrary.org/obo/OBI_0000245" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/OMRSE_00000260", "domainClassIds" : [ "http://purl.obolibrary.org/obo/OMRSE_00000076" ], @@ -24181,6 +34075,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/IAO_0000039", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/IAO_0000003" ] + }, { + "predicateId" : "http://purl.obolibrary.org/obo/OBI_0000846", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/OBI_0000245" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/OMRSE_00000070", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/OMRSE_00000057" ] diff --git a/omrse-full.obo b/omrse-full.obo index ace2407..139d521 100644 --- a/omrse-full.obo +++ b/omrse-full.obo @@ -1,34 +1,57 @@ format-version: 1.2 -data-version: omrse/releases/2024-03-22/omrse-full.owl +data-version: omrse/releases/2024-08-09/omrse-full.owl subsetdef: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_gp2term "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_ontology "" subsetdef: http://purl.obolibrary.org/obo/valid_for_gocam "" subsetdef: ro-eco "" subsetdef: RO:0002259 "" +synonymtypedef: OMO:0003000 "abbreviation" +synonymtypedef: OMO:0003001 "ambiguous synonym" +synonymtypedef: OMO:0003002 "dubious synonym" +synonymtypedef: OMO:0003003 "layperson synonym" +synonymtypedef: OMO:0003004 "plural form" +synonymtypedef: OMO:0003005 "UK spelling synonym" +synonymtypedef: OMO:0003006 "misspelling" +synonymtypedef: OMO:0003007 "misnomer" +synonymtypedef: OMO:0003008 "previous name" +synonymtypedef: OMO:0003009 "legal name" +synonymtypedef: OMO:0003010 "International Nonproprietary Name" +synonymtypedef: OMO:0003011 "latin term" +synonymtypedef: OMO:0003012 "acronym" +idspace: dc http://purl.org/dc/elements/1.1/ +idspace: foaf http://xmlns.com/foaf/0.1/ +idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# +idspace: protege http://protege.stanford.edu/plugins/owl/protege# +idspace: skos http://www.w3.org/2004/02/skos/core# +idspace: swrl http://www.w3.org/2003/11/swrl# +idspace: swrla http://swrl.stanford.edu/ontologies/3.3/swrla.owl# +idspace: swrlb http://www.w3.org/2003/11/swrlb# +idspace: terms http://purl.org/dc/terms/ +idspace: www http://www.referent-tracking.com/ remark: This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's \"meaningful use\" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt ontology: omrse/omrse-full -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Daniel Welch" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Selja Seppälä" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Shariq Tariq" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Swetha Garimalla" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "William Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/description "The Ontology for Modeling and Representation of Social Entities (OMRSE) is an OBO Foundry ontology that represents the various entities that arise from human social interactions, such as social acts, social roles, social groups, and organizations." xsd:string -property_value: http://purl.org/dc/elements/1.1/title "Ontology for Modeling and Representation of Social Entities" xsd:string -property_value: http://purl.org/dc/terms/license "https://creativecommons.org/licenses/by/4.0/" xsd:string -property_value: owl:versionInfo "2024-03-22" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "Daniel Welch" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "Selja Seppälä" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Shariq Tariq" xsd:string +property_value: dc:creator "Swetha Garimalla" xsd:string +property_value: dc:creator "William Hogan" xsd:string +property_value: dc:description "The Ontology for Modeling and Representation of Social Entities (OMRSE) is an OBO Foundry ontology that represents the various entities that arise from human social interactions, such as social acts, social roles, social groups, and organizations." xsd:string +property_value: dc:title "Ontology for Modeling and Representation of Social Entities" xsd:string +property_value: owl:versionInfo "2024-08-09" xsd:string +property_value: terms:license "https://creativecommons.org/licenses/by/4.0/" xsd:string [Term] id: APOLLO_SV:00000008 @@ -65,7 +88,7 @@ property_value: IAO:0000600 "The planned process of finding the number of elemen [Term] id: APOLLO_SV:00000480 -name: geographical migration of organism +name: geographical movement of organism def: "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." [] is_a: GO:0007610 ! behavior property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -96,7 +119,7 @@ property_value: IAO:0000117 "William R. Hogan" xsd:string id: APOLLO_SV:00000532 name: human travel def: "A geographical migration of an organism belonging to the species Homo sapiens." [] -is_a: APOLLO_SV:00000480 ! geographical migration of organism +is_a: APOLLO_SV:00000480 ! geographical movement of organism property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -123,7 +146,7 @@ property_value: IAO:0000112 "the Second World War" xsd:string property_value: IAO:0000112 "Verdi’s Requiem" xsd:string property_value: IAO:0000112 "your body mass index" xsd:string property_value: IAO:0000116 "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" xsd:string -property_value: IAO:0000116 "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000004", comment="per discussion with Barry Smith", seeAlso="http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf"} +property_value: IAO:0000116 "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000004", comment="per discussion with Barry Smith", seeAlso="www:_RTU/papers/CeustersICbookRevised.pdf"} property_value: IAO:0000600 "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/001-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl @@ -173,7 +196,7 @@ name: independent continuant def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/017-002"} comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant +disjoint_from: BFO:0000020 ! characteristic disjoint_from: BFO:0000031 ! generically dependent continuant relationship: BFO:0000050 BFO:0000004 {all_only="true"} ! part of independent continuant property_value: BFO:0000179 "ic" xsd:string @@ -304,9 +327,10 @@ property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000017 +name: realizable name: realizable entity def: "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." [] -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 ! characteristic disjoint_from: BFO:0000019 ! quality relationship: BFO:0000050 BFO:0000017 {all_only="true"} ! part of realizable entity property_value: BFO:0000179 "realizable" xsd:string @@ -336,7 +360,7 @@ property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000019 name: quality -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 ! characteristic relationship: BFO:0000050 BFO:0000019 {all_only="true"} ! part of quality property_value: BFO:0000179 "quality" xsd:string property_value: BFO:0000180 "Quality" xsd:string @@ -354,13 +378,14 @@ property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000020 +name: characteristic name: specifically dependent continuant def: "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." [] def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"} comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. is_a: BFO:0000002 ! continuant disjoint_from: BFO:0000031 ! generically dependent continuant -relationship: BFO:0000050 BFO:0000020 {all_only="true"} ! part of specifically dependent continuant +relationship: BFO:0000050 BFO:0000020 {all_only="true"} ! part of characteristic property_value: BFO:0000179 "sdc" xsd:string property_value: BFO:0000180 "SpecificallyDependentContinuant" xsd:string property_value: IAO:0000112 "of one-sided specifically dependent continuants: the mass of this tomato" xsd:string @@ -377,6 +402,8 @@ property_value: IAO:0000112 "the smell of this portion of mozzarella" xsd:string property_value: IAO:0000116 "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000005", comment="per discussion with Barry Smith"} property_value: IAO:0000602 "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl +property_value: seeAlso "https://github.com/OBOFoundry/COB/issues/65" xsd:string +property_value: seeAlso "https://github.com/oborel/obo-relations/pull/284" xsd:string [Term] id: BFO:0000023 @@ -760,11 +787,14 @@ property_value: IAO:0000117 "Amanda Hicks" xsd:string [Term] id: GO:0003674 +name: gene product or complex activity name: molecular_function def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs." [GOC:pdt] comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex. +comment: This is the same as GO molecular function synonym: "molecular function" EXACT [] -is_a: BFO:0000034 ! function +is_a: BFO:0000015 ! process +disjoint_from: GO:0008150 ! biological_process [Term] id: GO:0007610 @@ -776,8 +806,12 @@ is_a: GO:0008150 ! biological_process [Term] id: GO:0008150 +name: biological process name: biological_process def: "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt] +def: "A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective." [] +comment: A biological process is an evolved process +comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. synonym: "biological process" EXACT [] synonym: "physiological process" EXACT [] @@ -869,7 +903,7 @@ property_value: IAO:0000119 "OBI Plan and Planned Process branch" xsd:string [Term] id: IAO:0000008 name: obsolete_artifact -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000231 IAO:0000103 is_obsolete: true @@ -902,7 +936,7 @@ property_value: IAO:0000119 "GROUP: OBI" xsd:string id: IAO:0000012 name: obsolete2_digital entity def: "A digital entity is an information entity which is a collection of bits that can be interpreted by a computer. Two digital entities are the same if they are bitwise identical." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obsolete_digital entity" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\n\nSuperclass was 'digitial quality'" xsd:string property_value: IAO:0000117 "person:Chris Stoeckert" xsd:string @@ -956,7 +990,7 @@ property_value: IAO:0000117 "Person: Alan Ruttenberg" xsd:string [Term] id: IAO:0000018 name: obsolete_material_entity -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -964,7 +998,7 @@ is_obsolete: true id: IAO:0000019 name: obsolete2_binary digital entity def: "A binary digital entity is a digital entity that is encoded in a way that is not easily human readable and that contains other than text characters." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "binary digital entity" xsd:string property_value: IAO:0000112 "MS Word document, ZIP file, DICOM file, JPEG file" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\nSuperclass was 'digital entity'" xsd:string @@ -979,7 +1013,7 @@ is_obsolete: true id: IAO:0000024 name: obsolete_unit of measure def: "a unit of measure is the quality of some material entity compared to which another quality is some multiple of." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "The length of a ruler." xsd:string property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" xsd:string @@ -1103,7 +1137,7 @@ property_value: IAO:0000117 "PlanAndPlannedProcess Branch" xsd:string id: IAO:0000035 name: obsolete_study interpretation def: "A study interpretation is a textual entity about the implications of a study result. Examples include discussion of whether a hypothesis is false, whether the study failed to address the hypothesis, and whether the study results have led to new hypotheses" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obsolete_study interpretation" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000116 "2009-03-16: definition was \"A conclusion is a narrative object which can be published in a paper summerizing and interpreting a protocol application.\"" xsd:string @@ -1148,7 +1182,7 @@ property_value: IAO:0000119 "OBI_0000240" xsd:string id: IAO:0000047 name: obsolete2_text based digital entity def: "A text based digital entity is a digital entity that is encoded so that it only contains text characters." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "text based digital entity" xsd:string property_value: IAO:0000112 "XML file, C++ source code file" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\nsuperclass was 'digital document'" xsd:string @@ -1189,7 +1223,7 @@ property_value: IAO:0000119 "OBI_0000246" xsd:string id: IAO:0000059 name: obsolete2_report figure def: "A report figure is a report display element that has some aspect of illustration, but may be a composite of figures, images, and other elements" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "report figure" xsd:string property_value: IAO:0000114 IAO:0000124 property_value: IAO:0000116 "I prepended the 'report ' to make it clear that we mean parts of reports here. We may want a more generic version of 'figure', in which case this would become a defined class - figure and part_of some report" xsd:string @@ -1276,7 +1310,7 @@ property_value: IAO:0000119 "OBI_0000099" xsd:string id: IAO:0000091 name: obsolete_report element def: "A report element is a narrative object in which information is presented and consumed by a human being, and is part of a report. Examples of report elements are figure (dot plot), table, text portion (may include a movie or audio clip on a web page)." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "report element" xsd:string property_value: IAO:0000114 IAO:0000120 property_value: IAO:0000116 "2009-03-16: needs some more work (clarify relations)." xsd:string @@ -1297,7 +1331,7 @@ is_obsolete: true id: IAO:0000093 name: obsolete2_binary executable def: "Binary executable is a digital entity consisting of the binary representation of machine instructions of a specific processor or they may be binary pseudocode for a virtual machine. A non-source executable file is also called an object program. It is assumed that the binary executable file contains properly-formatted computer instructions. (derived from Wikipedia, Nov 1, 2007)" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "binary executable" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\nsuperclass was 'digital entity'" xsd:string property_value: IAO:0000117 "person:Jennifer Fostel" xsd:string @@ -1323,7 +1357,7 @@ property_value: IAO:0000119 "OBI_0000039" xsd:string id: IAO:0000097 name: obsolete_report table def: "A report table is a report display element consisting of a matrix of cells layed out in a grid, some set of which are filled with some information content" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "report table" xsd:string property_value: IAO:0000114 IAO:0000002 property_value: IAO:0000116 "2009-08-10 Alan Ruttenberg: Larry Hunter suggests that this be obsoleted and replaced by 'textual entity table'. Alan restored as there are OBI dependencies and this merits further discussion" xsd:string @@ -1408,7 +1442,7 @@ property_value: seeAlso "https://github.com/information-artifact-ontology/IAO/is id: IAO:0000105 name: obsolete2_digital document def: "A digital document is a digital entity consisting of an electronic file which can be rendered into human-readable form by one or more computational applications. The digital document does not refer to the information content of the document but to an instance of the file." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "digital document" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\nsuperclass was 'digial entity'" xsd:string property_value: IAO:0000117 "person:Jennifer Fostel" xsd:string @@ -1433,7 +1467,7 @@ property_value: IAO:0000119 "OBI_0000305" xsd:string [Term] id: IAO:0000128 name: obsolete_identifier -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000114 IAO:0000121 property_value: IAO:0000116 "_identifier is a container under information content entity for collecting types of terms to indicate a specific instance or clas of what was used or participated in an investigation. Identifiers are borne by a product or its packaging, and can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots.\n\nNote: everybody agreed that identifier is probably a too general term. We however felt that it would be appropriate to group \"identifiying\" terms under some kind of umbrella. We therefore propose to use _identifier for that purpose. As per OBI conventions, the _ prefixing identifier indicates that this is a helper class and shouldn't be considered as final." xsd:string property_value: IAO:0000231 IAO:0000226 @@ -1481,7 +1515,7 @@ property_value: IAO:0000116 "Alan grouped these in placeholder for the moment. N [Term] id: IAO:0000141 name: obsolete_digital quality -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4" xsd:string property_value: IAO:0000116 "Need to rework digital entity. Digital quality was suggested by Barry." xsd:string property_value: IAO:0000231 IAO:0000103 @@ -1551,7 +1585,7 @@ property_value: IAO:0000119 "WEB: http://en.wikipedia.org/wiki/Venn_diagram" xsd id: IAO:0000182 name: obsolete_survival curve def: "A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obsolete_survival curve" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON:Chris Stoeckert" xsd:string @@ -2209,7 +2243,7 @@ property_value: IAO:0000118 "associating information with a CRID in the CRID reg id: IAO:0000576 name: obsolete_establishing a CRID registry def: "a planned process with the objective to establish a system that allows to refer to specific entities of a certain kind and store information about them, by establishing a CRID registry and plan specifications for the process of 1) assigning a CRID and 2) looking up a CRID." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000116 "MC, 20101124: deprecated following discussion at IAO call 20101124. Term was deemed not necessary - no use case for now." xsd:string property_value: IAO:0000231 IAO:0000103 is_obsolete: true @@ -2925,7 +2959,7 @@ def: "A planned process which takes as input a database and fills another databa is_a: OBI:0000011 ! planned process relationship: OBI:0000293 IAO:0000030 ! has_specified_input information content entity relationship: OBI:0000299 IAO:0000030 ! has_specified_output information content entity -property_value: http://xmlns.com/foaf/0.1/page https://en.wikipedia.org/wiki/Extract,_transform,_load +property_value: foaf:page https://en.wikipedia.org/wiki/Extract,_transform,_load property_value: IAO:0000111 "database extract, transform, and load process" xsd:string property_value: IAO:0000116 "Alan Ruttenberg 12/21/16: Maybe this definition instead: A planned process which takes as input a database and copies concretizations from the first, optionally transforms then copies the result to the second" xsd:string property_value: IAO:0000116 "Alan Ruttenberg 12/21/16: We don't define database in IAO, currently, as the bare word is ambiguous. Reasonable interpretations of the word might be the material entity, an information structure, an information content entity. However this definition commits, at least, to there being some material thing which bear concretizations of information entities and that there are new concretizations created during the process. We consider the ETL process in terms of information entities rather than the concretizations. No committment is made as to whether the specified output." xsd:string @@ -3061,7 +3095,7 @@ intersection_of: OBI:0000312 IAO:0020010 {all_only="true"} ! is_specified_output intersection_of: OBI:0000312 IAO:0020010 ! is_specified_output_of identifier creating process relationship: IAO:0000219 BFO:0000001 ! denotes entity relationship: OBI:0000312 IAO:0020010 ! is_specified_output_of identifier creating process -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000111 "identifier" xsd:string property_value: IAO:0000117 "Justin Whorton" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3076,7 +3110,7 @@ def: "A grapheme is an information content entity that is a fundamental unit in def: "An information content entity that is a fundamental unit in a written language." [] comment: Grapheme is not about anything and hence is likely to not be an information content entity. If a new subclass of GDC for information structure entities is created it should move there. is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000112 "alphabetic letters, Chinese characters, numerical digits, punctuation marks, and the individual symbols of any of the world's writing systems" xsd:string property_value: IAO:0000117 "Justin Whorton" xsd:string property_value: IAO:0000119 "http://en.wikipedia.org/wiki/Grapheme" xsd:string @@ -3087,7 +3121,7 @@ id: IAO:0020002 name: utterance def: "An utterance is an information content entity that is a complete unit of speech in spoken language. " [] is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000119 "Wikipedia: http://en.wikipedia.org/wiki/Utterance" xsd:string @@ -3096,14 +3130,14 @@ id: IAO:0020003 name: mechanical wave quality def: "An attributive collection of qualities inhering in energy when transported through a medium in a wave." [] is_a: BFO:0000019 ! quality -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string [Term] id: IAO:0020004 name: writing quality def: "is a quality that is the concretization of graphemes and inheres in a material object." [] is_a: BFO:0000019 ! quality -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string [Term] @@ -3111,7 +3145,7 @@ id: IAO:0020005 name: writing bearer def: "is a material information bearer that bears the concretization of graphemes." [] is_a: IAO:0000178 ! material information bearer -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000112 "pieces of paper, tables, walls, floors, driveways, highway signs, computer screens, skin, tablets of clay, rocks, sheets of metal (license plates), sheets of papyrus, etc. clouds of smoke in skywriting," xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3126,7 +3160,7 @@ name: sound energy def: "Energy that is transported in a sound wave." [] is_a: IAO:0020006 ! portion of energy relationship: RO:0000053 IAO:0020003 ! bearer_of mechanical wave quality -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string [Term] id: IAO:0020008 @@ -3139,7 +3173,7 @@ id: IAO:0020009 name: oscillating def: "Oscillating is a processual that shows repetitive variation, typically in time, of some measured quality about a central value (often a point of equilibrium) or between two or more different states." [] is_a: BFO:0000015 ! process -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000119 "http://en.wikipedia.org/wiki/Oscillation" xsd:string [Term] @@ -3151,7 +3185,7 @@ is_a: OBI:0000011 ! planned process intersection_of: OBI:0000011 ! planned process intersection_of: OBI:0000299 IAO:0020000 ! has_specified_output identifier relationship: OBI:0000299 IAO:0020000 ! has_specified_output identifier -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Justin Whorton" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3165,7 +3199,7 @@ name: utterance process def: "is a planned process of making speech sounds which may or may not have an actual language involved. " [] is_a: OBI:0000011 ! planned process relationship: OBI:0000299 IAO:0020008 ! has_specified_output utterance energy -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000119 "http://en.wiktionary.org/wiki/utter" xsd:string @@ -3230,11 +3264,11 @@ comment: Many code sets are created for a specific purpose in addition to merely comment: The information content entities do not denote each other. is_a: IAO:0000030 ! information content entity relationship: BFO:0000051 IAO:0020000 ! has part identifier -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matt Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Clint Dowland" xsd:string +property_value: dc:contributor "Matt Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000117 "Justin Whorton" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3282,7 +3316,7 @@ property_value: IAO:0000117 "Amanda Hicks" xsd:string id: IAO:0020025 name: obsolete obligor role def: "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obligor role" xsd:string property_value: IAO:0000112 "Sam's obligor role realized by him taking Nigel to lunch after promising to do so; Sarah's obligor role realized by paying the purchase price to Layla after signing the contract specifying that she is buying a piece of land from Layla." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3294,7 +3328,7 @@ replaced_by: duty holder role (IAO:210016) id: IAO:0020026 name: obsolete obligee role def: "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obligee role" xsd:string property_value: IAO:0000112 "Nigel's obligee role realized by Sam taking him out for lunch after Sam so promised; Layla's obligee role realized by receiving the money after signing a contract in which Sarah obtained a piece of land in exchange for a specified sum of money." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3315,7 +3349,7 @@ property_value: IAO:0000119 "OBIB/ICO community" xsd:string [Term] id: IAO:0021000 name: obsolete_claim -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3325,7 +3359,7 @@ name: deontic document act name: obsolete_deontic document act def: "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." [] is_a: IAO:0021009 ! deontic declaration -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass intersection_of: IAO:0021009 ! deontic declaration intersection_of: OBI:0000293 IAO:0021007 ! has_specified_input document act input document intersection_of: OBI:0000299 IAO:0000310 ! has_specified_output document @@ -3342,7 +3376,7 @@ is_obsolete: true id: IAO:0021002 name: obsolete_document act def: "A social act creating, revoking or transferring a socio-legal generically dependent continuant or a role by validating (signing, stamping, publishing) a document." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "my filling in an immigration form, a judge's signing and stamping a court order" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000103 @@ -3362,7 +3396,7 @@ property_value: IAO:0000117 "Mathias Brochhausen" xsd:string id: IAO:0021004 name: obsolete_socio-legal generically dependent continuant def: "Socio-legal generically dependent continuants are generically dependent continuants that come into existence through social acts and that if they get concretized are concretized as realizable entities." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "the claim of a piece of land, the obligation to pay rent to the owner of a rental property" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3371,7 +3405,7 @@ is_obsolete: true id: IAO:0021005 name: obsolete_deontic declaration def: "A social act that brings about, transfers or revokes a socio-legal generically dependent continuant or brings about or transforms a role. Declarations do not depend on words spoken or written, but sometimes are merely actions, for instance the signing of a document." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "deontic declaration" xsd:string property_value: IAO:0000112 "my consenting verbally to buy a used TV set for $ 500, John Robie's taking of Mrs. Steven's jewels, Jane Doe's revoking of informed consent over the phone, John Doe signing an employment contract." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3384,7 +3418,7 @@ is_obsolete: true id: IAO:0021006 name: obsolete obligee role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3413,7 +3447,7 @@ property_value: IAO:0000117 "Mathias Brochhausen" xsd:string [Term] id: IAO:0021010 name: obsolete_obligation -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3432,7 +3466,7 @@ property_value: IAO:0000119 "https://plato.stanford.edu/entries/rights/" xsd:str id: IAO:0021014 name: obsolete_declaration executive role def: "The role borne by a human being, an organization or an aggregate of either of both that is realized by being the active participant in a declaration." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3442,7 +3476,7 @@ id: IAO:0021015 name: obsolete_document template creator role def: "The role of a human being or an aggregate of human beings preparing the initial document to undergo a document act, thus creating a socio-legal generically dependent continuant." [] comment: not that the "template" does not need to be a template at all. It can be a document that is getting stamped and signed and by these acts creating some socio-legal generically dependent continuants. -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "the role borne by the US Citizen and Immigration Service realized by providing the template form for entering the US as a non-resident alien, the role of a guideline committee in putting together a clinical guideline" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000226 @@ -3462,7 +3496,7 @@ property_value: IAO:0000119 "https://plato.stanford.edu/entries/rights/" xsd:str id: IAO:0021017 name: obsolete_claimant role def: "The role of a human being or an aggregate of human beings concretizing a claim." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3471,7 +3505,7 @@ is_obsolete: true id: IAO:0021018 name: obsolete_obligator role def: "The role of a human being or an aggregate of human beings concretizing an obligation." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3490,7 +3524,7 @@ property_value: IAO:0000119 "https://plato.stanford.edu/entries/rights/" xsd:str id: IAO:0021020 name: obsolete_declaration target def: "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "me as a bearer of a spouse role, which participates in a document act, John Doe as bearer of a debtor role, which participates in a document act" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000103 @@ -3526,7 +3560,7 @@ property_value: IAO:0000119 "https://plato.stanford.edu/entries/rights/" xsd:str id: IAO:0021030 name: obsoleted_document act target def: "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3542,7 +3576,7 @@ property_value: IAO:0000117 "Mathias Brochhausen" xsd:string id: IAO:0021032 name: obsolete_obligee role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Sarah Bost" xsd:string property_value: IAO:0000231 IAO:0000103 is_obsolete: true @@ -3551,7 +3585,7 @@ is_obsolete: true id: IAO:0021033 name: obsolete_obligor role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Sarah Bost" xsd:string property_value: IAO:0000231 IAO:0000103 is_obsolete: true @@ -3568,7 +3602,7 @@ property_value: IAO:0000118 "enactment" xsd:string id: IAO:0021300 name: obsolete obligor role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "John Judkins" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3744,7 +3778,7 @@ property_value: IAO:0000111 "EL++ ontology module" xsd:string id: MF:0000030 name: representation def: "A dependent continuant which is about a portion of reality." [] -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 ! characteristic property_value: IAO:0000119 "http://www.jbiomedsem.com/content/1/1/10" xsd:string [Term] @@ -3950,7 +3984,7 @@ property_value: IAO:0000232 "creation date: 2011-09-20T09:57:44Z\nedited date: 3 [Term] id: OMIABIS:0000060 name: obsolete survey data -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Alice Nzinga" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3959,7 +3993,7 @@ replaced_by: OBIB:0000667 [Term] id: OMIABIS:0001025 name: obsolete survey plan specification -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Alice Nzinga" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3968,7 +4002,7 @@ replaced_by: OBIB:0000701 [Term] id: OMIABIS:0001035 name: obsolete survey execution -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: OBIB:0000710 @@ -3977,7 +4011,7 @@ id: OMRSE:00000000 name: social security number def: "Social Security Number(SSN) is a Centrally Registered IDentifier that is a nine-digit number issued to U.S. citizens, permanent residents, and temporary (working) residents under section 205(c) of the Social Security Act, codified as 42 U.S.C. § 405(c). The number is issued to an individual by the Social Security Administration, an independent agency of the United States government. Its primary purpose is to track individuals for Social Security purposes." [] is_a: IAO:0000578 ! centrally registered identifier -property_value: http://purl.org/dc/elements/1.1/creator "Cheng Chen(cxchen1@ualr.edu)" xsd:string +property_value: dc:creator "Cheng Chen(cxchen1@ualr.edu)" xsd:string property_value: IAO:0000118 "SSN" xsd:string property_value: IAO:0000119 "http://en.wikipedia.org/wiki/Social_Security_number" xsd:string @@ -4098,8 +4132,8 @@ name: health care provider organization role def: "A role that inheres in an organization and that is realized by the providing of services in a health care encounter." [] is_a: OMRSE:00000027 ! organization health care role relationship: BFO:0000054 OGMS:0000097 ! realized in health care encounter -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000016 @@ -4117,7 +4151,7 @@ property_value: IAO:0000117 "Amanda Hicks" xsd:string id: OMRSE:00000018 name: obsolete_hospital role def: "A role borne by an organization and realized by providing healthcare services by healthcare professionals of multiple different disciplines of medicine and enabling stationary treatment." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000118 "hospital" xsd:string is_obsolete: true @@ -4153,7 +4187,7 @@ id: OMRSE:00000024 name: obsolete role in human social processes def: "A role inhering in an entity realized by social interactions in human society." [] comment: Previous definition: A role played by an entity in human social processes. -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -4188,7 +4222,7 @@ is_a: OMRSE:00000025 ! organization social role id: OMRSE:00000028 name: obsolete geopolitical organization def: "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii)." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "geopolitical organization" xsd:string is_obsolete: true @@ -4196,7 +4230,7 @@ is_obsolete: true [Term] id: OMRSE:00000029 name: obsolete geopoli organization -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "geopoli organization" xsd:string is_obsolete: true @@ -4214,7 +4248,7 @@ id: OMRSE:00000031 name: obsolete major administrative subdivision def: "A subnational entity that is the primary organizational member of a nation, is subject to the full set of laws of the nation, enjoys all the privileges established under the laws of the nation, is not a member of any other geopolitical entity, and itself governs a part of the geographical region governed by the nation." [] comment: example: Northern Ireland -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "major administrative subdivision" xsd:string is_obsolete: true @@ -4223,7 +4257,7 @@ id: OMRSE:00000032 name: obsolete geopolitical dependency def: "A subnational entity that does not possess full political independence or sovereignty as a sovereign state, but remains politically outside of the controlling state and controls a geographical region that is outside the controlling state's integral region." [] comment: Typically, the common feature is that the dependency does not conduct foreign affairs, and relegates this authority to the sovereign state. BUt otherwise, it is largely or completely autonomous relative to the administrative subdivisions. Examples include Puerto Rico (U.S.), Guam (U.S.), Greenland (Denmark), French Polynesia (France), and Falkland Islands (United Kingdom). -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "geopolitical dependency" xsd:string is_obsolete: true @@ -4244,7 +4278,7 @@ property_value: IAO:0000412 "http://purl.obolibrary.org/obo/omrse/releases/2022- id: OMRSE:00000034 name: obsolete aggregate of sovereign states def: "An aggregate of sovereign states that share some feature in common, but is not an organization nor necessarily the outcome of some treaty among them." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "An aggregate of geopoli organizations that is not itself a sovereign state and whose members are only sovereign states that have some feature in common" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "aggregate of sovereign states" xsd:string @@ -4254,7 +4288,7 @@ is_obsolete: true id: OMRSE:00000035 name: obsolete aggregate of geopoli organizations def: "An object aggregate that is not itself a geopolitical organization and whose members are only geopolitical organizations that have some feature in common" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "aggregate of geopoli organizations" xsd:string @@ -4264,7 +4298,7 @@ is_obsolete: true id: OMRSE:00000036 name: obsolete aggregate of dependencies def: "An aggregate of geopoli organizations that is not itself a geopolitical dependency and whose members are only geopolitical dependencies that have some feature in common." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "aggregate of dependencies" xsd:string is_obsolete: true @@ -4273,7 +4307,7 @@ is_obsolete: true id: OMRSE:00000037 name: obsolete aggregate of major administrative subdivisions def: "An aggregate of geopoli organizations that is not itself a major administrative subdivision and whose members are only major administrative subdivisions that have some feature in common" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "aggregate of major administrative subdivisions" xsd:string is_obsolete: true @@ -4303,8 +4337,8 @@ id: OMRSE:00000041 name: obsolete intergovernmental organization def: "an intergovernmental organization that has at least three member states, that has activies in at least three states, and that is unified by some formal intergovernmental agreement" [] comment: examples:\nNorth American Free Trade Argreement [NAFTA] , Universal Postal Union [UPU], Oragnaization of American States [OAS], World Bank), Organization of Petroleum exporting countries [OPEC] United Nations [UN[, The World Trade Organization [WTO], The World Health Organization [WHO], UNICEF -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "intergovernmental organization" xsd:string property_value: IAO:0000119 "\"IGOs are organizations whose memebers include at lesat three states, that have activities in several states, and whose members are held together by a formal intergovernmental agreement ... These organizations range in size from three members (North American Free Trade Argreement [NAFTA]) to more than 190 memembers (Universal Postal Union (UPU)]. Memebers may come from primarily one georgraphic regioni (Oragnaization of American States [OAS]) or from all geographic regions (World Bank). although soem IGOs are designed to achieve a single purpose (Organization of Petroleum exporting countries [OPEC]), others have been developed for multiple tasks (United Nations [UN}). ... IGOs are recognized subjects of international law with separate standing fromt heir member states.\" Karns and Mingst I(2004) p. 7" xsd:string @@ -4315,8 +4349,8 @@ id: OMRSE:00000042 name: obsolete nongovernmental organization def: "a geopolitical organization that is voluntary and private, whose members are individual persons or organizations that come together to acheive a common purpose." [] comment: Examples:\nInternaltion Federation of Red Cross and Red Crescent Societies, Oxfam, CARE, Doctors Without Borders, World Wildlife Fund, Transparency International, Human Rights Watch, Amnesty International, and Save the Children. -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000118 "nongovernmental organizations" xsd:string property_value: IAO:0000119 "NGOs are private voluntary organizations whose members are individuals or associations that come together to acheive a common purpose. Some organizations are formed to advocate a particular cause such as human rights, peace, or envirnomental projetion. Others are established to provide services such as disaster relief, humantarian aid in war-torn socieities, or development assistance. ... National level groups are often called interest or pressure groups, and many of them are now linked to counterpart groups in other countries through transnational networks or federations. International NGOs, like IGOs, may draw their members from one region or several regions, and they may have very specific functions or be multi-functional.\n\nKarns and Mingst (2004) p. 10f." xsd:string is_obsolete: true @@ -4325,8 +4359,8 @@ is_obsolete: true id: OMRSE:00000043 name: obsolete private governance organizations comment: Examples: private bond-rating agencies such as Moody's Investors Service, International Chamber of Commerce, Worldwide Responsible Apparel Manufacturing Principles, Forest Stewardship -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "private governance organizations" xsd:string property_value: IAO:0000119 "\"Although the very meaning of the term is controversial, it involves authoritative decsionmaking in areas that once were part of national legal frameworks, the government, the sovereign state, or the public sector.\"\n\nKarns and Mingst (2004) p. 14." xsd:string @@ -4337,7 +4371,7 @@ id: OMRSE:00000044 name: obsolete governmental organization def: "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii). \n\nNote: this definition was taken over from \"geopolitical organization\"." [] comment: IMPORTANT: The label "geopolitical organization" was previously used for OMRSE_00000044 (governmental organization). "geopoli organization" is a label for a new and different class. -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "governmental organization" xsd:string is_obsolete: true @@ -4347,7 +4381,7 @@ id: OMRSE:00000045 name: obsolete sovereign state def: "A governmental organization with a defined territory on which it exercises internal and external sovereignty, a permanent population, a government, and the capacity to enter into relations with other sovereign states." [] comment: Per Wikipedia, the word 'nation' does not always refer to soverign states. For example, the "nation of Islam". -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "nation" xsd:string property_value: IAO:0000118 "nation state" xsd:string @@ -4359,7 +4393,7 @@ is_obsolete: true id: OMRSE:00000046 name: obsolete subnational entity def: "a governmental organization that has a local, regional, or territorial government that recognizes a sovereign state as its higher political authority" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "subnational entity" xsd:string @@ -4369,7 +4403,7 @@ is_obsolete: true id: OMRSE:00000047 name: obsolete supranational entity comment: e.g., the EU -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "supranational entity" xsd:string is_obsolete: true @@ -4635,7 +4669,7 @@ property_value: IAO:0000119 "http://www.census.gov/cps/about/cpsdef.html\n\nlast id: OMRSE:00000083 name: obsolete OMB ethnic identity datum def: "An ethnic identity datum that is the output of an ethnic identification process that uses OMB terminology for ethnicity or terminology that is mapped the OMB ethnicity terms." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB ethnic identity information content entity @@ -4648,7 +4682,7 @@ is_a: BFO:0000038 ! one-dimensional temporal region [Term] id: OMRSE:00000085 name: obsolete socio-legal human social role -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "A role that concretizes a socio-lega generically dependent continuant" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true @@ -4731,7 +4765,7 @@ is_a: BFO:0000038 ! one-dimensional temporal region id: OMRSE:00000098 name: obsolete racial identity datum def: "A racial identity is an information content entity that is the output of some racial identitification process and is intended to be a truthful statement about the genetic or cultural race of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: racial identity information content entity @@ -4743,7 +4777,7 @@ name: racial identification process id: OMRSE:00000100 name: obsolete ethnic identity datum def: "An ethnic identity datum is an information content entity that is the output of some ethnic identitification process and is intended to be a truthful statement about the cultural or national heritage of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: ethnic identity information content entity @@ -4921,7 +4955,7 @@ is_a: BFO:0000034 ! function [Term] id: OMRSE:00000124 name: obsolete residential function -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: residence function (OMRSE:00000075) @@ -4943,7 +4977,7 @@ property_value: IAO:0000118 "discharge process" xsd:string id: OMRSE:00000127 name: obsolete hispanic or latino identity datum def: "An OMB ethnic identity datum that indicates the person identified is of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Hispanic or Latino identity information content entity @@ -4952,7 +4986,7 @@ replaced_by: OMB Hispanic or Latino identity information content entity id: OMRSE:00000128 name: obsolete not hispanic or latino identity datum def: "An OMB ethnic identity datum that indicates the person identified is not of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB not Hispanic or Latino identity information content entity @@ -4980,8 +5014,8 @@ relationship: OBI:0000299 OMRSE:00000185 ! has_specified_output obsolete OMB rac id: OMRSE:00000132 name: obsolete identity datum def: "An identity datum is an information content entity that is the output of some identitification process and is intended to be a truthful statement about a person's social identity. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:creator "Amanda Hicks" xsd:string is_obsolete: true replaced_by: social identity information content entity @@ -4989,8 +5023,8 @@ replaced_by: social identity information content entity id: OMRSE:00000133 name: obsolete gender identity datum def: "A gender identity is an information content entity that is the output of some gender identitification process and is intended to be a truthful statement about a person's subjective sense of their gender. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:creator "Amanda Hicks" xsd:string is_obsolete: true replaced_by: gender identity information content entity @@ -4998,7 +5032,7 @@ replaced_by: gender identity information content entity id: OMRSE:00000134 name: identification process is_a: IAO:0021003 ! social act -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000135 @@ -5008,7 +5042,7 @@ name: gender identification process id: OMRSE:00000138 name: obsolete female gender identity datum def: "a gender identity datum resulting from a gender identification process in which ‘female’ is selected based on the participant's subjective sense of gender" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: female gender identity information content entity @@ -5029,7 +5063,7 @@ is_a: OMRSE:00000139 ! surgeon role id: OMRSE:00000141 name: obsolete male gender identity datum def: "a gender identity datum resulting from a gender identification process in which ‘male’ is selected based on the participant's subjective sense of gender" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000119 "" xsd:string is_obsolete: true @@ -5043,8 +5077,8 @@ is_a: IAO:0000030 ! information content entity intersection_of: IAO:0000030 ! information content entity intersection_of: IAO:0000136 APOLLO_SV:00000532 ! is about human travel relationship: IAO:0000136 APOLLO_SV:00000532 ! is about human travel -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string property_value: IAO:0000119 "https://github.com/ufbmi/OMRSE/issues/79" xsd:anyURI [Term] @@ -5054,9 +5088,9 @@ is_a: IAO:0000028 ! symbol intersection_of: IAO:0000028 ! symbol intersection_of: IAO:0000219 OMRSE:00000076 ! denotes household relationship: IAO:0000219 OMRSE:00000076 ! denotes household -property_value: http://purl.org/dc/elements/1.1/contributor "A symbol that denotes a specific household" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "A symbol that denotes a specific household" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000144 @@ -5066,14 +5100,14 @@ is_a: IAO:0000028 ! symbol intersection_of: IAO:0000028 ! symbol intersection_of: IAO:0000219 PCO:0000020 ! denotes family relationship: IAO:0000219 PCO:0000020 ! denotes family -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000145 name: obsolete self-identity data item def: "an identity datum that has been asserted by the person whom it is about" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true @@ -5182,7 +5216,7 @@ property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] id: OMRSE:00000162 name: obsolete medical advice -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] @@ -5215,7 +5249,7 @@ relationship: BFO:0000066 OMRSE:00000074 ! occurs in housing unit [Term] id: OMRSE:00000168 name: obsolete questions asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000198 @@ -5249,7 +5283,7 @@ relationship: BFO:0000054 OGMS:0000097 ! realized in health care encounter [Term] id: OMRSE:00000173 name: obsolete material information bearer of question text plus answer set -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] @@ -5265,20 +5299,20 @@ is_a: OMRSE:00000163 ! response to a question asking process [Term] id: OMRSE:00000176 name: obsolete identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] id: OMRSE:00000177 name: obsolete ethnic identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000199 [Term] id: OMRSE:00000178 name: obsolete race identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000200 @@ -5291,7 +5325,7 @@ is_a: OMRSE:00000175 ! response to an identity question asking process id: OMRSE:00000180 name: obsolete American Indian or Alaska Native identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB American Indian or Alaska Native identity information content entity @@ -5300,7 +5334,7 @@ replaced_by: OMB American Indian or Alaska Native identity information content e id: OMRSE:00000181 name: obsolete Asian identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Asian identity information content entity @@ -5309,7 +5343,7 @@ replaced_by: OMB Asian identity information content entity id: OMRSE:00000182 name: obsolete black or African American identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the black racial groups of Africa." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB black or African American identity information content entity @@ -5318,7 +5352,7 @@ replaced_by: OMB black or African American identity information content entity id: OMRSE:00000183 name: obsolete Native Hawaiian or other Pacific Islander identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Native Hawaiian or other Pacific Islander identity information content entity @@ -5327,7 +5361,7 @@ replaced_by: OMB Native Hawaiian or other Pacific Islander identity information id: OMRSE:00000184 name: obsolete white identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Europe, the Middle East, or North Africa." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB white identity information content entity @@ -5336,7 +5370,7 @@ replaced_by: OMB white identity information content entity id: OMRSE:00000185 name: obsolete OMB racial identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB racial identity information content entity @@ -5384,10 +5418,10 @@ id: OMRSE:00000192 name: obsolete communication def: "A process in which some participant shares some information content entity about some state of that participant with some other participant." [] comment: The term 'participant' in the definition need not refer to a human agent. -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -5395,10 +5429,10 @@ is_obsolete: true id: OMRSE:00000193 name: obsolete linguistic competence def: "A disposition inhering in a material entity that, if realized, is realized by that material entity’s communicating via some linguistic concretization." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -5406,10 +5440,10 @@ is_obsolete: true id: OMRSE:00000194 name: obsolete language def: "A disposition inhering in a linguistic community that (i) is a maximal aggregate of communicatively compatible linguistic competences, and (ii) if realized, is realized by any and all realizations of those linguistic competences." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string is_obsolete: true @@ -5419,19 +5453,19 @@ name: linguistic community def: "A maximal aggregate of material entities such that each member bears a linguistic competence for the same language." [] is_a: BFO:0000040 ! material entity relationship: RO:0000053 OMRSE:00002069 ! bearer_of language -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] id: OMRSE:00000196 name: obsolete expression of preferred language def: "A communication in which some participant states a preference for some communicative process to be in a certain language, and that has a concretization of a preferred language information content entity as its specified output." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -5439,10 +5473,10 @@ is_obsolete: true id: OMRSE:00000197 name: obsolete preferred language information content entity def: "An information content entity that (i) is about some person, some language, and some linguistic competence; and (ii) conveys the language with which that person prefers to communicate within some given context." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -5503,11 +5537,11 @@ name: social identity information content entity def: "An information content entity that is intended to be a truthful statement about some person and whether that person identifies as some particular aspect of social identity—such as a gender, an ethnicity, a race, or a sexual orientation—where the sense of identifying may correspond to either (i) an aspect of one’s cognitive representation of oneself, (ii) how one prefers to be regarded by others within some social context, or (iii) how one chooses to present oneself to others within some social context." [] comment: We include (i)-(iii) to acknowledge that there are different senses of "identify" that are relevant here, and that we may not always be sure which sense the person concretizing the social identity information content entity intended. While (i) concerns how one thinks of oneself, (ii) and (iii) are more focused on one's interactions with others. Importantly, some choose not to share with others how they identify in the sense of (i). For example, one can consider oneself to be some certain gender without either wanting others to know or choosing to present oneself in a corresponding way. We distinguish (ii) and (iii) because one can prefer to be regarded some certain way without attempting to present oneself in any corresponding way. is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5516,11 +5550,11 @@ name: ethnic identity information content entity def: "A social identity information content entity that is about whether some person identifies as some ethnicity." [] comment: Ethnicity is separate from but related to racial identity. It refers more to identifying with a particular culture than with individuals similar in physical appearance. It includes things like Hispanic ethnicity (which spans many nations) and national cultural identities like Irish and ethnic groups within nations such as Catalan and Armenian. is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5529,11 +5563,11 @@ name: OMB ethnic identity information content entity def: "An ethnic identity information content entity that uses OMB terminology for ethnicity or terminology that is strictly mapped onto the OMB ethnicity terms." [] comment: OMB dichotomizes ethnicity into Hispanic or Latino and Not Hispanic or Latino, and ignores all other forms of ethnicity. is_a: OMRSE:00000205 ! ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5542,11 +5576,11 @@ name: OMB Hispanic or Latino identity information content entity def: "An OMB ethnic identity information content entity that is about some person's identifying as Hispanic or Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." [] comment: It comprehends people of Portuguese culture or origin in Brazil. is_a: OMRSE:00000206 ! OMB ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5554,11 +5588,11 @@ id: OMRSE:00000208 name: OMB not Hispanic or Latino identity information content entity def: "An OMB ethnic identity information content entity that is about some person's identifying as neither Hispanic nor Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." [] is_a: OMRSE:00000206 ! OMB ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5566,11 +5600,11 @@ id: OMRSE:00000209 name: gender identity information content entity def: "A social identity information content entity that is about whether some person identifies as some gender." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5578,11 +5612,11 @@ id: OMRSE:00000210 name: female gender identity information content entity def: "A gender identity information content entity that is about some person's identifying as female in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5590,11 +5624,11 @@ id: OMRSE:00000211 name: male gender identity information content entity def: "A gender identity information content entity that is about some person's identifying as male in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5602,11 +5636,11 @@ id: OMRSE:00000212 name: non-binary identity information content entity def: "A gender identity information content entity that is about some person's identifying as non-binary in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5614,11 +5648,11 @@ id: OMRSE:00000213 name: racial identity information content entity def: "A social identity information content entity that is about whether some person identifies as some race." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5626,11 +5660,11 @@ id: OMRSE:00000214 name: OMB racial identity information content entity def: "A racial identity information content entity that uses OMB terminology and definitions for race or terminology that is strictly mapped onto the OMB race terms." [] is_a: OMRSE:00000213 ! racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5639,11 +5673,11 @@ name: OMB American Indian or Alaska Native identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as American Indian or Alaska Native, which is intended to mean having origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." [] comment: This definition corresponds to that used by OMB. It is worth noting that the OMB definition from which this one is derived is problematic, in that it implies that one's race cannot be Native American or Alaskan Native unless one maintains tribal affiliations or community attachment. is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5651,11 +5685,11 @@ id: OMRSE:00000216 name: OMB Asian identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as Asian, which is intended to mean having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5663,11 +5697,11 @@ id: OMRSE:00000217 name: OMB black or African American identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as black or African American which is intended to mean having origins in any of the black racial groups of Africa." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5675,11 +5709,11 @@ id: OMRSE:00000218 name: OMB Native Hawaiian or other Pacific Islander identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as Native Hawaiian or other Pacific Islander, which is intended to mean having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5687,11 +5721,11 @@ id: OMRSE:00000219 name: OMB white identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as white which is intended to mean having origins in any of the original peoples of Europe, the Middle East, or North Africa." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5699,22 +5733,22 @@ id: OMRSE:00000220 name: sexual orientation identity information content entity def: "A social identity information content entity that is about whether some person identifies as having some sexual orientation." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string [Term] id: OMRSE:00000221 name: residence ZIP code information content entity def: "An information content entity that is about some geographical region, in which a postal delivery route denoted by a particular ZIP code is realized, and that is the specified output of a disclosure of residence." [] is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5722,7 +5756,7 @@ id: OMRSE:00000222 name: debt obligation def: "A directive information entity that prescribes that something will be transferred from some human or organization that is the bearer of a duty holder role to another human or organization that is the bearer of a claimant role." [] is_a: IAO:0000033 ! directive information entity -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "debt obligation" xsd:string property_value: IAO:0000112 "Three Arrows Capital declared bankruptcy on July 1, 2022 after defaulting on a $665 million debt obligation owed to Voyager Digital." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5732,11 +5766,11 @@ id: OMRSE:00000223 name: disclosure of residence def: "A social act that creates an information content entity that is about some geographical region in which a human being dwells." [] is_a: IAO:0021003 ! social act -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5744,11 +5778,11 @@ id: OMRSE:00000224 name: electronic health record data set def: "A data set whose members are obtained from one or more electronic health records." [] is_a: IAO:0000100 ! data set -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brocchausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brocchausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "EHR data set" xsd:string @@ -5762,11 +5796,11 @@ comment: The outcome of the adjudication of a claim in the claims dataset could comment: The reason we say billing data are only part of the input is because we are not conflating the insurance claim with the bill. It is our understanding that the provider’s bill of services is either part of the claim or “attached” to it in some manner, but doesn’t constitute the entire claim itself. comment: The sources of these data are held by insurers or other health plan providers. is_a: IAO:0000100 ! data set -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brocchausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brocchausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] @@ -5774,11 +5808,11 @@ id: OMRSE:00000226 name: health care billing data set def: "A data set whose members are obtained from billing-related data sources that (i) are generated by a health care organization as a result of internal administrative processes, and (ii) are about services rendered or materials used during some health care encounter." [] is_a: IAO:0000100 ! data set -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5786,7 +5820,7 @@ id: OMRSE:00000227 name: health care administrative process def: "A planned process (i) that is neither a health care process nor an ancillary health care process, and (ii) in which some employee of a health care organization manages, or helps to manage, the performance of tasks that realize the functions of that organization." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000112 "Recording data in an EHR. Financial tasks for a healthcare organization. Scheduling shifts for health care workers." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5795,7 +5829,7 @@ id: OMRSE:00000228 name: principal diagnosis-assignment process def: "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." [] is_a: OMRSE:00000227 ! health care administrative process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5803,7 +5837,7 @@ id: OMRSE:00000229 name: secondary diagnosis-assignment process def: "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about an underlying condition that is distinct from the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." [] is_a: OMRSE:00000227 ! health care administrative process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5811,12 +5845,12 @@ id: OMRSE:00000230 name: county smoking survey plan specification def: "A survey plan specification that aims to collect information about the smoking behavior or lack thereof of a population on a county level. Concretization of a smoking survey plan that is stratified by county." [] is_a: OBIB:0000701 ! survey plan specification -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey plan specification." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -5825,12 +5859,12 @@ id: OMRSE:00000231 name: county smoking survey execution def: "A survey execution that realizes the concretization of a smoking survey plan specification that is stratified by county." [] is_a: OBIB:0000710 ! survey execution -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey execution." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -5840,12 +5874,12 @@ name: county smoking survey data def: "Survey data that is the specified output of a county smoking survey execution." [] is_a: OBIB:0000667 ! survey data relationship: OBI:0000312 OMRSE:00000231 ! is_specified_output_of county smoking survey execution -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey data." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -5870,7 +5904,7 @@ id: OMRSE:00000235 name: money def: "A debt obligation between two parties that has part a scalar value specification and whose concretizations indicate that their bearers can be used in a financial transaction or payment of debt, or as a measure of the value of some entity in a financial valuation process or prospective financial valuation process." [] is_a: OMRSE:00000222 ! debt obligation -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "money" xsd:string property_value: IAO:0000112 "Todd does not have enough money to buy more plants at the horticultural club's poinsettia sale." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5880,7 +5914,7 @@ id: OMRSE:00000236 name: currency def: "A material entity that is the bearer of a concretization of money and is created by some governmental organization or on behalf of some governmental organization that has authorized its creation." [] is_a: BFO:0000040 ! material entity -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "currency" xsd:string property_value: IAO:0000112 "US currency is an accepted form of legal tender, not just in the United States, but in many countries around the world, such as El Salvador." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5890,7 +5924,7 @@ id: OMRSE:00000237 name: exchange of ownership def: "A planned process whereby one agent (or active participant) or a group of agents transfer ownership of some property to another agent (or active participant) or group of agents in the process, who in return transfer ownership of some their property to the first agent (or active participant)." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "exchange of ownership" xsd:string property_value: IAO:0000112 "Tom exchanged ownership of his computer for Tina's scooter." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5901,7 +5935,7 @@ id: OMRSE:00000238 name: financial transaction def: "A planned process whereby one participant partly or completely fulfills an obligation to another participant by transferring ownership of some other debt obligation, which is typically money." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "financial transaction" xsd:string property_value: IAO:0000112 "Apple acquired semiconductors from Samsung in a financial transaction yesterday." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5912,7 +5946,7 @@ id: OMRSE:00000239 name: payment of debt def: "A planned process whereby ownership of some entity of value is transferred by one participant to another to fulfill some obligation, on their behalf, after some service is performed or the ownership of some entity is exchanged." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "payment of debt" xsd:string property_value: IAO:0000112 "I made a debt payment with my credit card company yesterday and no longer owe them money." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5922,7 +5956,7 @@ id: OMRSE:00000240 name: financial valuation process def: "A planned process that has as specified output some scalar measurement datum that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some other material entity." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "financial valuation process" xsd:string property_value: IAO:0000112 "The financial valuation of Ravi's car today determined that the car is worth $2000." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5932,7 +5966,7 @@ id: OMRSE:00000241 name: prospective financial valuation process def: "A planned process that has as specified output some predicted value that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some material entity at some point in the future." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "prospective financial valuation process" xsd:string property_value: IAO:0000112 "The prospective valuation of my company's stock indicates strong optimism for our financial growth over the next few years." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5942,7 +5976,7 @@ id: OMRSE:00000242 name: intimate partnership def: "Relational quality inhering in persons by virtue of being each other’s spouse, boyfriend/girlfriend, dating partner, or ongoing sexual partner." [] is_a: BFO:0000145 ! relational quality -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5950,7 +5984,7 @@ id: OMRSE:00000243 name: abusive behavior def: "Behavior that is cruel, violent, demeaning, or invasive." [] is_a: GO:0007610 ! behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5958,7 +5992,7 @@ id: OMRSE:00000244 name: psychologically abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: mentally or emotionally harm or exert control over another." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5966,7 +6000,7 @@ id: OMRSE:00000245 name: physically abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: harm, restrain, or coerce another through physical force." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5974,7 +6008,7 @@ id: OMRSE:00000246 name: sexually abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: force or coerce another to participate in a sexual act to which the latter has not freely given consent." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5982,7 +6016,7 @@ id: OMRSE:00000249 name: birth attendant role def: "A health care provider role that is realized in maintaining the health of a human being during their pregnancy and both them and the neonate during labor, delivery, and postpartum." [] is_a: OMRSE:00000012 ! health care provider role -property_value: http://purl.org/dc/elements/1.1/contributor "https://orcid.org/0000-0001-6595-0902" xsd:string +property_value: dc:contributor "https://orcid.org/0000-0001-6595-0902" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "skilled birth attendant role" xsd:string @@ -5991,10 +6025,10 @@ id: OMRSE:00000250 name: linguistic competence information content entity def: "An information content entity that conveys that a particular person has a linguistic competence for a particular language" [] is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6002,10 +6036,10 @@ id: OMRSE:00000251 name: primary language information content entity def: "A linguistic competence information content entity that conveys the language is the one for which the person has their most proficient linguistic competence." [] is_a: OMRSE:00000250 ! linguistic competence information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6013,10 +6047,10 @@ id: OMRSE:00000252 name: language-at-home information content entity def: "A linguistic competence information content entity that conveys the person uses the language at home." [] is_a: OMRSE:00000250 ! linguistic competence information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6024,7 +6058,7 @@ id: OMRSE:00000253 name: religious gathering def: "A social act or aggregate of social acts that include some worship, prayer, or proselytizing." [] is_a: IAO:0021003 ! social act -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6032,7 +6066,7 @@ id: OMRSE:00000254 name: hospital bed capacity data item def: "A count of the number of patients that some hospital facility has the capacity for." [] is_a: APOLLO_SV:00000032 ! count -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6040,7 +6074,7 @@ id: OMRSE:00000255 name: proportion of population in an elementary occupation def: "A data item that is the output of some data transformation that takes as input the number of individuals in a population who are occupation holders and has as output the proportion of those individuals who are classified by the European Skills, Competences, Qualifications and Occupations as door-to-door sales worker, news or street vendors; building cleaning workers; pressers, textile, garment, or related materials; septic tank servicers or sewer pipe cleaners; farmworkers or laborers, crop, nursery, or greenhouse; farmworkers, farm, ranch, or aquacultural animal; agricultural workers, all other; landscaping or groundskeeping workers; grounds maintenance workers, all other; forest or conservation workers; logging workers, all other; fishing or hunting workers; helpers--extraction workers; extraction workers, all other; helpers, construction trades; rail-track laying or maintenance equipment operators; construction laborers; helpers--production workers; production workers, all other; laborers or material movers; refuse or recyclable material collectors; couriers or messengers; material moving workers, all other; aircraft cargo handling supervisors; first-line supervisors of helpers, laborer, or material mover, hand; first-line supervisors of transportation worker, all other; tank car, truck, or ship loaders; cooks, fast food; cooks, short order; food preparation workers; dining room or cafeteria attendants or bartender helpers; dishwashers; food preparation or serving related workers, all other; personal care or service workers, all other; baggage porters or bellhops; maintenance or repair workers, general; installation, maintenance, or repair workers, all other; meter readers, utilities; coin, vending, or amusement machine servicers or repairers; motion picture projectionists; ushers, lobby attendants, or ticket takers; amusement or recreation attendants; locker room, coatroom, or dressing room attendants; and parking attendants." [] is_a: IAO:0000027 ! data item -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000116 "Currently, the Occupation Ontology (OccO ) only represents occupations as they are defined by O*NET. We define this class extentionally according to the O*NET-defined occupations that map to occupations in ESCO that are classified as elementary occupations." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -6049,15 +6083,15 @@ id: OMRSE:00000256 name: Medicaid policy holder role def: "A policy holder role that inheres in a person who participates in the creation of an insurance policy with a US state Medicaid agency." [] is_a: OMRSE:00000094 ! policy holder role -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string [Term] id: OMRSE:00000257 name: insurance company def: "An insurance organization that is privately owned and that participates in the creation of insurance policies in return for some money from the policy holder." [] is_a: OMRSE:00000093 ! insurance organization -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6065,7 +6099,7 @@ id: OMRSE:00000258 name: private insurance policy holder role def: "A policy holder role that inheres in a person who participates in the creation of an insurance policy with an insurance company." [] is_a: OMRSE:00000094 ! policy holder role -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6073,7 +6107,7 @@ id: OMRSE:00000259 name: US state Medicaid agency def: "A government organization that administers a given US state's Medicaid program by participating in the creation of insurance policies with eligible people and by participating in some payment of debt for a specified aggregate of health care encounters, specified processes (e.g, treatments, diagnostic tests) that are part of those encounters, and material entities used or prescribed during the encounters (e.g., medicine, prosthetics, glasses)." [] is_a: GEO:000000400 ! governmental organization -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6081,8 +6115,8 @@ id: OMRSE:00000262 name: categorization scheme def: "Information content entity that characterizes some aggregate of entities as partitioned into distinct subgroups, thereby demarcating them as categories." [] is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6091,8 +6125,8 @@ name: social categorization scheme def: "Categorization scheme that divides humans into groups considered by themselves or others as distinct on the basis of assumed common characteristics." [] is_a: OMRSE:00000262 ! categorization scheme relationship: OMRSE:00000263 OMRSE:00000023 {all_only="true"} ! demarcates collection of humans -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6101,8 +6135,8 @@ name: social category def: "Collection of humans demarcated by some social categorization scheme." [] is_a: OMRSE:00000023 ! collection of humans relationship: OMRSE:00000264 OMRSE:00000265 ! demarcated by social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6110,8 +6144,8 @@ id: OMRSE:00000268 name: racial categorization scheme def: "Social categorization scheme based on characteristics assumed to be biologically hereditary and to result in part from common locality of ancestors." [] is_a: OMRSE:00000265 ! social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6120,8 +6154,8 @@ name: racial category def: "Social category demarcated by some racial categorization scheme." [] is_a: OMRSE:00000267 ! social category relationship: OMRSE:00000264 OMRSE:00000268 ! demarcated by racial categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6129,8 +6163,8 @@ id: OMRSE:00000270 name: ethnic categorization scheme def: "Social categorization scheme based on characteristics that are primarily cultural—such as ancestry, history, national or tribal background, cultural attachments or traditions, past linguistic heritage, religious affiliations, caste, or claimed kinship." [] is_a: OMRSE:00000265 ! social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6139,8 +6173,8 @@ name: ethnic category def: "Social category demarcated by some ethnic categorization scheme." [] is_a: OMRSE:00000267 ! social category relationship: OMRSE:00000264 OMRSE:00000270 ! demarcated by ethnic categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6148,8 +6182,8 @@ id: OMRSE:00000274 name: personal data disclosure def: "Communication in which a person reports some data items about either that person or another person." [] is_a: OMRSE:00002068 ! communication -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6157,8 +6191,8 @@ id: OMRSE:00000277 name: subjective representation def: "Cognitive representation in which the representation’s bearer is represented as being its bearer." [] is_a: MF:0000031 ! cognitive representation -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6166,8 +6200,8 @@ id: OMRSE:00000278 name: social identity def: "Subjective representation of its bearer as being a member of some social category." [] is_a: OMRSE:00000277 ! subjective representation -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6175,8 +6209,8 @@ id: OMRSE:00000279 name: racial identity def: "Social identity for which the category is a racial category." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6184,8 +6218,8 @@ id: OMRSE:00000281 name: ethnic identity def: "Social identity for which the category is an ethnic category." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6193,8 +6227,8 @@ id: OMRSE:00000282 name: behavioral identity def: "Social identity for which the category is also a behaviorally distinct group defined by its members degree of participation in some type of behavior." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6202,14 +6236,14 @@ id: OMRSE:00000284 name: occupation disposition def: "A disposition that, if realized, is realized when the bearer intends to, and does, exercise abilities and skills in pursuit of obtaining or maintaining an job role." [] is_a: BFO:0000016 ! disposition -property_value: http://purl.org/dc/elements/1.1/contributor "Damion Dooley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John Beverley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string +property_value: dc:contributor "Damion Dooley" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John Beverley" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6217,15 +6251,15 @@ id: OMRSE:00000285 name: occupation activity def: "A process in which an occupation holder participates that realizes either an occupation disposition or job role." [] is_a: BFO:0000015 ! process -property_value: http://purl.org/dc/elements/1.1/contributor "Damion Dooley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Eric Merrell" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John Beverley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string +property_value: dc:contributor "Damion Dooley" xsd:string +property_value: dc:contributor "Eric Merrell" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John Beverley" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "occupation process" xsd:string @@ -6234,10 +6268,10 @@ id: OMRSE:00000286 name: U.S. veteran role def: "A human role within an organization that inheres in a person who has served in a branch of the U.S. military, is not currently serving in the U.S. military, and the person's service ended in accordance to conditions defined by the U.S. government." [] is_a: OMRSE:00000086 ! human role within an organization -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000119 "38 U.S.C. §101(2), as well as “Determining Veteran Status” by the U.S. Department of Veterans Affairs (VA) Office of Small and Disadvantaged Business Utilization (OSDBU): https://www.va.gov/OSDBU/docs/Determining-Veteran-Status.pdf." xsd:string @@ -6246,9 +6280,9 @@ id: OMRSE:00000500 name: job role data item def: "A data item that is about a person's job role and/or its realization." [] is_a: IAO:0000027 ! data item -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint. Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "S. Clint. Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "Can be about any aspect of employment, such as salary, work location, or employer." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "employment data item" xsd:string @@ -6285,13 +6319,21 @@ is_a: IAO:0000027 ! data item [Term] id: OMRSE:00000507 +name: Afar name: obsolete non-binary gender identity datum def: "A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender." [] comment: Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.)\n\nExamples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "non-binary gender identity datum" xsd:string property_value: IAO:0000117 "Paul Fabry" xsd:string property_value: IAO:0000117 "William Hogan" xsd:string +property_value: IAO:0000118 "Afaraf" xsd:string +property_value: IAO:0000118 "Qafar af" xsd:string +property_value: IAO:0000118 "Qafaraf" xsd:string +property_value: IAO:0000118 "’Afar Af" xsd:string +property_value: OMRSE:00002025 "aa" xsd:string +property_value: OMRSE:00002026 "aar" xsd:string +property_value: OMRSE:00002027 "aar" xsd:string is_obsolete: true replaced_by: non-binary gender identity information content entity @@ -6507,8 +6549,8 @@ id: OMRSE:00002047 name: kindergarten education program def: "A primary education plan specification that specifies the competencies and information content entities that should be acquired by students in the first year of primary education in the United States." [] is_a: OMRSE:00002034 ! primary education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T12:38:43Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T12:38:43Z" xsd:dateTime property_value: IAO:0000111 "kindergarten education plan specification" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6517,8 +6559,8 @@ id: OMRSE:00002048 name: undergraduate higher education program def: "A higher education plan specification that specifies the awarding of an associates or bachelors degree in the United States or equivalent degrees in other nations, and specifies as a pre-requisite the completion of some secondary education program." [] is_a: OMRSE:00002042 ! higher education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T12:52:46Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T12:52:46Z" xsd:dateTime property_value: IAO:0000111 "undergraduate higher education plan specification" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "undergraduate education program" xsd:string @@ -6530,8 +6572,8 @@ def: "A higher education plan specification that specifies the awarding of a gra comment: Graduate degrees include masters, PhD, MD, PharmD, and other post-graduate professional degrees. To distinguish MS/PhD from the professional ones, subclass this class. comment: The prerequisite degree is at the bachelors level or equivalent. An associates degree is almost never sufficient for entry into graduate education programs. is_a: OMRSE:00002042 ! higher education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:01:34Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:01:34Z" xsd:dateTime property_value: IAO:0000111 "graduate higher education plan specification" xsd:string property_value: IAO:0000118 "graduate education program" xsd:string @@ -6541,8 +6583,8 @@ name: highest level of education is grades 1 through 6 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of first through sixth grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of primary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:23:46Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:23:46Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades one through six socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6552,8 +6594,8 @@ name: highest level of education is grades 7 through 9 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of seventh (7th) through ninth (9th) grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of lower secondary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:27:15Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:27:15Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades seven through nine socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6563,8 +6605,8 @@ name: highest level of education is grades 10 through 12 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of tenth (10th) through twelfth (12th) grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of upper secondary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:27:50Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:27:50Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades ten through twelve socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6574,8 +6616,8 @@ name: highest level of education is completion of undergraduate degree data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some undergraduate degree." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:28:27Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:28:27Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some undergraduate degree socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6585,8 +6627,8 @@ name: highest level of education is completion of graduate certificate or degree def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some graduate certificate or degree." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:28:49Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:28:49Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some graduate degree socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6596,8 +6638,8 @@ name: highest level of education is completion of vocaational education program def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some vocational education program." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:29:28Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:29:28Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some vocational education program socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6607,8 +6649,8 @@ name: highest level of education is completion of kindergarten data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is pre-kindergarten." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates that a person has completed only early childhood education and nothing more. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:47:38Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:47:38Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of kindergarten socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6618,8 +6660,8 @@ name: highest level of education is completion of pre-kindergarten data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is kindergarten." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:48:10Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:48:10Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of pre-kindergarten socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6631,9 +6673,9 @@ comment: Other dispositions that it can and likely does have as dispositional pa comment: The realization of this disposition by definition realizes the bearer's linguistic competence that is a dispositional part of this disposition. The realization of the linguistic competence would be an occurrent part of the realization of this disposition (and not a temporal part). comment: Whereas linguistic competence may be afforded to non-human agents, literacy is nearly always considered in the context of human beings. is_a: BFO:0000016 ! disposition -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Xi Yang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yonghui Wu" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Xi Yang" xsd:string +property_value: dc:contributor "Yonghui Wu" xsd:string property_value: IAO:0000111 "language literacy competence" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "human literacy" xsd:string @@ -6644,9 +6686,9 @@ id: OMRSE:00002059 name: caregiver role def: "A human social role that, if realized, is realized in providing assistance in the activities of daily living of another human being who possesses reduced capability to complete some of these activities alone." [] is_a: OMRSE:00000001 ! human social role -property_value: http://purl.org/dc/elements/1.1/contributor "John Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "John Judkins" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6655,9 +6697,9 @@ name: family relationship def: "A relational quality that inheres within two or more persons related as members of a domestic group, or a number of domestic groups linked through descent from a common ancestor, marriage, or adoption." [] comment: We are also intending on including other family arrangements. This is something we are working on. is_a: BFO:0000145 ! relational quality -property_value: http://purl.org/dc/elements/1.1/contributor "John Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "John Judkins" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000119 "http://purl.obolibrary.org/obo/ERO_0002033" xsd:string [Term] @@ -6666,7 +6708,7 @@ name: monetary personal income data item def: "A data item that is about the sum of earnings for some person(s) from various forms of payment or profits." [] comment: We use the phrase ‘some person’ in the definition because this class can be about an individual's or a household's earnings. Similarly, we use 'personal income' in the label because the term is typically restricted to individuals and households. This class is also restricted to being about monetary forms of income. is_a: IAO:0000027 ! data item -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string property_value: IAO:0000112 "Examples of monetary forms of payment include: wages, salary, or tips; interest generated by capital; dividends earned; lottery, game, or contest monetary winnings; alimony; royalties; trusts; pensions; receipt of rental payments; unemployment payments; social security payments; worker's compensation; social security payments; or profit from entrepreneurial activities." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -6678,9 +6720,9 @@ comment: Instances include any process that brings it about that some specifical comment: Instances include, but are not limited to, processes that bring about cognitive concretizations. is_a: BFO:0000015 ! process relationship: RO:0000057 BFO:0000040 ! has_participant material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "Taking notes on a meeting is an example in which the concretization relation is newly established, since the SDCs that concretize the GDCs come into existence as the notes are written. In contrast, using slides prepared by someone else in order to convey information during a presentation is a case of using a concretization in which the performer neither brings the concretizing SDCs into existence nor is responsible for their standing in the concretization relation to the relevant GDCs. A nonlinguistic example is drawing the logo of one’s favorite brand, in which one creates a pattern that concretizes a GDC that is also concretized by patterns on products of the brand." xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string @@ -6689,9 +6731,9 @@ id: OMRSE:00002063 name: linguistic concretization-utilization process def: "A concretization-utilization process in which the utilized specifically dependent continuant concretizes the generically dependent through use of some language." [] is_a: OMRSE:00002062 ! concretization-utilization process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6700,11 +6742,11 @@ name: concretization-interpretation process def: "Process in which some participant infers that some particular specifically dependent continuant stands in the concretization relation to some particular generically dependent continuant." [] comment: The interpretation need not be accurate. It may even be the case that the specifically dependent continuant has not previously concretized anything. is_a: BFO:0000015 ! process -relationship: RO:0000057 BFO:0000020 ! has_participant specifically dependent continuant +relationship: RO:0000057 BFO:0000020 ! has_participant characteristic relationship: RO:0000057 BFO:0000040 ! has_participant material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "For example, reading a text message that says, “It is raining outside,” and inferring that the words on the screen are meant to convey information about the weather. The pattern on the screen that corresponds to the words is the SDC, and the ICE about the rain is the GDC. Or, hearing your spouse say, “Can you come to the kitchen?” and then knowing that your spouse wants you to come to the kitchen. You have interpreted the patterns of the sound as concretizing a GDC about what your spouse wants. Or, seeing a drawing of a basketball player and inferring—perhaps incorrectly—that it is of Michael Jordan." xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string @@ -6713,9 +6755,9 @@ id: OMRSE:00002065 name: linguistic concretization-interpretation process def: "A concretization-interpretation process in which the specifically dependent continuant is inferred to concretize the generically dependent continuant in a way that makes use of some language." [] is_a: OMRSE:00002064 ! concretization-interpretation process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6725,9 +6767,9 @@ def: "A disposition that inheres in some material entity and is such that that, comment: When realized in a concretization-utilization process, the only relevant concretization may in some cases be a cognitive one, but that suffices to realize a linguistic competence. For example, suppose one begins to write a letter, planning out the words ahead of time, but is interrupted before beginning to write and never resumes. During the process of planning out the words and what one intends to communicate, one is already concretizing words cognitively, as well as considering which combinations of words one can use to concretize additional generically dependent continuants. In doing so, one performs processes that realize one's linguistic competence, without producing any concretizations other than those cognitive ones. is_a: BFO:0000016 ! disposition relationship: RO:0000052 BFO:0000040 ! characteristic of material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6739,9 +6781,9 @@ comment: The interpretation need not correspond exactly to what was intended by comment: The term 'participant' in the definition need not refer to a human agent. is_a: BFO:0000015 ! process relationship: RO:0000057 BFO:0000040 ! has_participant material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6750,9 +6792,9 @@ name: language def: "A disposition that (i) is an aggregate of linguistic competences, considered as forming a distinct group on the basis of perceived common characteristics, such as mutual intelligibility among their bearers, in addition to historical or cultural factors; (ii) if realized, is realized in any and all realizations of those linguistic competences; and (iii) inheres in a linguistic community." [] is_a: BFO:0000016 ! disposition relationship: RO:0002351 OMRSE:00002066 ! has member linguistic competence -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] @@ -6760,9 +6802,9 @@ id: OMRSE:00002070 name: disclosure of preferred language def: "A communication in which some participant states a preference for some communicative process to be in a certain language, via some concretization of some preferred language information content entity." [] is_a: OMRSE:00002068 ! communication -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6772,9 +6814,9 @@ def: "An information content entity that is about some person and some language, is_a: IAO:0000030 ! information content entity relationship: IAO:0000136 BFO:0000040 ! is about material entity relationship: IAO:0000136 OMRSE:00002069 ! is about language -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string [Term] @@ -6784,7 +6826,7 @@ def: "A role that inheres in some entity that is realized in a social act." [] comment: Previous definition: A role played by an entity in human social processes. is_a: OMRSE:00000048 ! material entity role relationship: RO:0000052 BFO:0000040 {all_only="true"} ! characteristic of material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000412 "http://purl.obolibrary.org/obo/omrse/releases/2023-10-08/omrse.owl" xsd:string @@ -6847,7 +6889,7 @@ property_value: OOSTT:00000030 "An advanced academic degree in the principles an id: PATO:0000001 name: quality def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 ! characteristic [Term] id: PATO:0000051 @@ -6940,7 +6982,7 @@ property_value: IAO:0000412 http://purl.obolibrary.org/obo/uo.owl id: obligee_role name: obsolete obligee role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Sarah Bost" xsd:string is_obsolete: true @@ -6948,7 +6990,7 @@ is_obsolete: true id: obligor_role name: obsolete obligor role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Sarah Bost" xsd:string is_obsolete: true @@ -7038,11 +7080,11 @@ id: BFO:0000062 name: preceded by def: "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco -property_value: http://purl.org/dc/terms/source "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" xsd:string property_value: IAO:0000111 "preceded by" xsd:string property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string property_value: IAO:0000118 "is preceded by" xsd:string property_value: IAO:0000118 "preceded_by" xsd:string +property_value: terms:source "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent holds_over_chain: BFO:0000050 BFO:0000062 @@ -7108,7 +7150,7 @@ property_value: IAO:0000116 "see https://github.com/information-artifact-ontolog property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" xsd:string property_value: IAO:0000231 IAO:0000103 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -7138,7 +7180,7 @@ inverse_of: IAO:0000143 ! mentioned by id: IAO:0000143 name: mentioned by def: "Inverse of the relation 'mentions'" [] -property_value: http://purl.org/dc/elements/1.1/date "2022-01-28T07:20:08Z" xsd:dateTime +property_value: dc:date "2022-01-28T07:20:08Z" xsd:dateTime property_value: IAO:0000117 http://orcid.org/0000-0002-8844-9165 property_value: IAO:0000233 https://github.com/information-artifact-ontology/IAO/issues/250 @@ -7160,7 +7202,7 @@ id: IAO:0000220 name: obsolete_materially denotes property_value: IAO:0000116 "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" xsd:string property_value: IAO:0000231 IAO:0000103 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -7182,14 +7224,14 @@ inverse_of: IAO:0000417 ! is quality measured as id: IAO:0000222 name: obsolete_describes property_value: IAO:0000231 IAO:0000103 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] id: IAO:0000223 name: obsolete_represents property_value: IAO:0000231 IAO:0000103 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -7271,9 +7313,9 @@ is_a: BFO:0000051 ! has part id: IAO:0020012 name: obsolete_designates def: "x designates y, if for any given group of language users, x is an information content entity, is about y, and represents y in a linguistic context.." [] -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000228 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true replaced_by: IAO:0000219 @@ -7281,7 +7323,7 @@ replaced_by: IAO:0000219 id: IAO:0020013 name: is_borrowed_reference_to def: "x is_borrowed_reference_for y, if x is a proper name that is used to refer to one individual among a specific group after the dubbing process took place." [] -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string domain: IAO:0020000 ! identifier range: BFO:0000001 ! entity is_asymmetric: true @@ -7290,7 +7332,7 @@ is_asymmetric: true id: IAO:0020014 name: is_fixing_reference_to def: "x is_fixed_reference_for y, if x is an utterance or graphemes concretized as writing quality inhering in some independent continuant that is used to single out one individual and refer to the latter among a specific group after the." [] -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string is_asymmetric: true [Typedef] @@ -7318,7 +7360,7 @@ def: "d socio-legally transfers l if l participates in d and d has specified inp property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000103 is_functional: true -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true is_asymmetric: true @@ -7357,6 +7399,7 @@ property_value: IAO:0000117 "PERSON: Melanie Courtot" xsd:string property_value: IAO:0000412 http://purl.obolibrary.org/obo/obi.owl domain: OBI:0000011 ! planned process is_a: RO:0000057 ! has_participant +inverse_of: OBI:0000312 ! is_specified_output_of [Typedef] id: OBI:0000312 @@ -7384,6 +7427,8 @@ property_value: IAO:0000117 "Person:Helen Parkinson" xsd:string property_value: IAO:0000119 "Person:Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Person:Helen Parkinson" xsd:string property_value: IAO:0000232 "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" xsd:string +range: OBI:0000245 ! organization +inverse_of: OBI:0001688 ! has organization member [Typedef] id: OBI:0001688 @@ -7393,12 +7438,28 @@ property_value: IAO:0000111 "has organization member" xsd:string property_value: IAO:0000114 IAO:0000123 property_value: IAO:0000116 "See tracker:\nhttps://sourceforge.net/tracker/index.php?func=detail&aid=3512902&group_id=177891&atid=886178" xsd:string property_value: IAO:0000117 "Person: Jie Zheng" xsd:string +domain: OBI:0000245 ! organization + +[Typedef] +id: OBIB:0000732 +name: owns +property_value: IAO:0000117 "Mathias Brochhausen" xsd:string +property_value: IAO:0000600 "This is a primitive relation. This relation is the foundation to the owners right to have the owned entity at his/her full disposal." xsd:string +inverse_of: OBIB:0000735 ! is owned by +is_asymmetric: true + +[Typedef] +id: OBIB:0000735 +name: is owned by +def: "a is owned by b if b has complete power over a. All rights and obligations of ownership are grounded in this (primitive) relation. The claims and obligations of ownership can be partially transferred to a third party by the owner, b." [] +property_value: IAO:0000119 "Reinach, A. Sämtliche Werke. Texkritische Ausgabe, München: Philosophia Verlag, 1989, p.189-204." xsd:string +is_asymmetric: true [Typedef] id: OMIABIS:0000008 name: obsolete owns property_value: IAO:0000117 "Mathias Brochhausen" xsd:string -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true replaced_by: OBIB:0000732 @@ -7406,7 +7467,7 @@ replaced_by: OBIB:0000732 id: OMIABIS:0000009 name: obsolete administrates property_value: IAO:0000117 "Mathias Brochhausen" xsd:string -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true replaced_by: OBIB:0000733 @@ -7428,7 +7489,7 @@ is_obsolete: true id: OMRSE:00000021 name: obsolete is-component-of-aggregate comment: At the instance level, this relation is the named inverse of is-aggregate-of.\n\nAt the type level, however, not so.\n\nWe expect BFO 2.0 to have this relation as well, and we will obsolete this property and declare it equivalent to BFO's version when BFO 2.0 comes out. -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -7455,14 +7516,14 @@ name: provides service id: OMRSE:00000247 name: is abuse of def: "Relation between an abusive behavior and one upon whom it is inflicted." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Typedef] id: OMRSE:00000248 name: has aggressor def: "Relation between an abusive behavior and one who inflicts it upon someone or something else." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Typedef] @@ -7476,8 +7537,8 @@ range: BFO:0000040 ! material entity id: OMRSE:00000263 name: demarcates def: "Relation in which a categorization scheme stands to each category into which it partitions things." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: OMRSE:00000262 ! categorization scheme is_a: IAO:0000136 ! is about @@ -7487,8 +7548,8 @@ inverse_of: OMRSE:00000264 ! demarcated by id: OMRSE:00000264 name: demarcated by def: "Relation in which a category stands to the categorization scheme that demarcates it as a category." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string range: OMRSE:00000262 ! categorization scheme @@ -7496,8 +7557,8 @@ range: OMRSE:00000262 ! categorization scheme id: OMRSE:00000272 name: has primary data subject def: "Relation in which a data item stands to the person it is both about and primarily associated with." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: IAO:0000030 ! information content entity range: NCBITaxon:9606 ! Homo sapiens @@ -7508,8 +7569,8 @@ inverse_of: OMRSE:00000273 ! primary data subject of id: OMRSE:00000273 name: primary data subject of def: "The inverse of has primary data subject." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: NCBITaxon:9606 ! Homo sapiens range: IAO:0000030 ! information content entity @@ -7518,8 +7579,8 @@ range: IAO:0000030 ! information content entity id: OMRSE:00000275 name: has reporter def: "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: OMRSE:00000274 ! personal data disclosure range: NCBITaxon:9606 ! Homo sapiens @@ -7530,8 +7591,8 @@ inverse_of: OMRSE:00000276 ! reporter of id: OMRSE:00000276 name: reporter of def: "The inverse of has reporter." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: NCBITaxon:9606 ! Homo sapiens range: OMRSE:00000274 ! personal data disclosure @@ -7563,7 +7624,7 @@ property_value: IAO:0000116 "A bearer can have many dependents, and its dependen property_value: IAO:0000118 "bearer_of" xsd:string property_value: IAO:0000118 "is bearer of" xsd:string property_value: RO:0001900 RO:0001901 -range: BFO:0000020 ! specifically dependent continuant +range: BFO:0000020 ! characteristic is_inverse_functional: true [Typedef] @@ -7584,14 +7645,14 @@ id: RO:0000057 name: has participant name: has_participant def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] -property_value: http://purl.org/dc/elements/1.1/source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" xsd:string -property_value: http://purl.org/dc/terms/source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" xsd:string +property_value: dc:source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" xsd:string property_value: IAO:0000111 "has participant" xsd:string property_value: IAO:0000112 "this blood coagulation has participant this blood clot" xsd:string property_value: IAO:0000112 "this investigation has participant this investigator" xsd:string property_value: IAO:0000112 "this process has participant this input material (or this output material)" xsd:string property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string property_value: IAO:0000118 "has_participant" xsd:string +property_value: terms:source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000002 ! continuant holds_over_chain: BFO:0000051 RO:0000057 @@ -7605,7 +7666,7 @@ property_value: IAO:0000112 "A journal article is an information artifact that i property_value: IAO:0000112 "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." xsd:string property_value: IAO:0000412 "http://purl.obolibrary.org/obo/obi.owl" xsd:string domain: BFO:0000031 ! generically dependent continuant -range: BFO:0000020 ! specifically dependent continuant +range: BFO:0000020 ! characteristic inverse_of: RO:0000059 ! concretizes [Typedef] @@ -7616,7 +7677,7 @@ property_value: IAO:0000111 "concretizes" xsd:string property_value: IAO:0000112 "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." xsd:string property_value: IAO:0000112 "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." xsd:string property_value: IAO:0000412 "http://purl.obolibrary.org/obo/obi.owl" xsd:string -domain: BFO:0000020 ! specifically dependent continuant +domain: BFO:0000020 ! characteristic range: BFO:0000031 ! generically dependent continuant [Typedef] @@ -7743,7 +7804,7 @@ inverse_of: RO:0001025 ! located in id: RO:0001025 name: located in def: "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" [] -property_value: http://purl.org/dc/elements/1.1/source "http://www.obofoundry.org/ro/#OBO_REL:located_in" xsd:string +property_value: dc:source "http://www.obofoundry.org/ro/#OBO_REL:located_in" xsd:string property_value: IAO:0000111 "located in" xsd:string property_value: IAO:0000112 "my brain is located in my head" xsd:string property_value: IAO:0000112 "this rat is located in this cage" xsd:string @@ -8046,7 +8107,7 @@ def: "OBSOLETE x actively participates in y if and only if x participates in y a comment: Obsoleted as the inverse property was obsoleted. property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "agent in" xsd:string -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true replaced_by: RO:0002608 @@ -8073,11 +8134,11 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -property_value: http://purl.org/dc/terms/source "https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1" xsd:anyURI property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 https://en.wikipedia.org/wiki/Allen%27s_interval_algebra property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." xsd:string +property_value: terms:source "https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1" xsd:anyURI domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent @@ -8220,9 +8281,9 @@ def: "p is causally upstream of, positive effect q iff p is casually upstream of comment: holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: http://purl.org/dc/terms/creator https://orcid.org/0000-0002-6601-2165 property_value: RO:0004049 RO:0002411 property_value: seeAlso https://wiki.geneontology.org/Causally_upstream_of,_positive_effect +property_value: terms:creator https://orcid.org/0000-0002-6601-2165 is_a: RO:0002411 ! causally upstream of is_a: RO:0004047 ! causally upstream of or within, positive effect @@ -8232,9 +8293,9 @@ name: causally upstream of, negative effect def: "p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: http://purl.org/dc/terms/creator https://orcid.org/0000-0002-6601-2165 property_value: RO:0004050 RO:0002411 property_value: seeAlso https://wiki.geneontology.org/Causally_upstream_of,_negative_effect +property_value: terms:creator https://orcid.org/0000-0002-6601-2165 is_a: RO:0002411 ! causally upstream of is_a: RO:0004046 ! causally upstream of or within, negative effect @@ -8546,12 +8607,12 @@ name: interacts with def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] subset: ro-eco synonym: "in pairwise interaction with" EXACT [] -property_value: closeMatch "http://purl.obolibrary.org/obo/MI_0914" xsd:anyURI property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." xsd:string property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI +property_value: skos:closeMatch "http://purl.obolibrary.org/obo/MI_0914" xsd:anyURI domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_symmetric: true @@ -8560,11 +8621,11 @@ is_symmetric: true id: RO:0002436 name: molecularly interacts with def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: closeMatch "http://purl.obolibrary.org/obo/MI_0915" xsd:anyURI property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "binds" xsd:string property_value: IAO:0000118 "molecularly binds with" xsd:string property_value: seeAlso ECO:0000353 +property_value: skos:closeMatch "http://purl.obolibrary.org/obo/MI_0915" xsd:anyURI is_symmetric: true is_a: RO:0002434 ! interacts with @@ -8705,6 +8766,14 @@ domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant is_a: RO:0002506 ! causal relation between entities +[Typedef] +id: RO:0002577 +name: system +def: "A material entity consisting of multiple components that are causally integrated." [] +property_value: IAO:0000116 "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000119 "http://www.jbiomedsem.com/content/4/1/43" xsd:string + [Typedef] id: RO:0002578 name: directly regulates @@ -8925,14 +8994,14 @@ id: RO:0009501 name: realized in response to def: "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r." [] synonym: "triggered by process" EXACT [https://orcid.org/0000-0002-6601-2165] -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6996-0040 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6601-2165 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-7073-9172 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8461-9745 property_value: IAO:0000112 "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions." xsd:string property_value: IAO:0000112 "An inflammatory disease that is realized in response to an inflammatory process occurring in the gut (which is itself the realization of a process realized in response to harmful stimuli in the mucosal lining of th gut)" xsd:string property_value: IAO:0000112 "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph." xsd:string property_value: seeAlso "https://docs.google.com/document/d/1KWhZxVBhIPkV6_daHta0h6UyHbjY2eIrnON1WIRGgdY/edit" xsd:anyURI +property_value: terms:contributor https://orcid.org/0000-0001-6996-0040 +property_value: terms:contributor https://orcid.org/0000-0002-6601-2165 +property_value: terms:contributor https://orcid.org/0000-0002-7073-9172 +property_value: terms:contributor https://orcid.org/0000-0002-8461-9745 domain: BFO:0000017 ! realizable entity range: BFO:0000015 ! process holds_over_chain: BFO:0000054 RO:0002404 @@ -8998,10 +9067,10 @@ name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] property_value: IAO:0000112 "A diagnostic testing device utilizes a specimen." xsd:string -property_value: IAO:0000117 https://orcid.org/0000-0001-9625-1899 -property_value: IAO:0000117 https://orcid.org/0000-0003-2620-0345 property_value: IAO:0000232 "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." xsd:string property_value: IAO:0000232 "See github ticket https://github.com/oborel/obo-relations/issues/497" xsd:string +property_value: terms:contributor https://orcid.org/0000-0001-9625-1899 +property_value: terms:contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: RO:0002215 RO:0002233 creation_date: 2021-11-08T12:00:00Z @@ -9009,7 +9078,7 @@ creation_date: 2021-11-08T12:00:00Z id: RO:0019000 name: regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 +property_value: terms:contributor https://orcid.org/0000-0002-8688-6599 domain: BFO:0000015 ! process range: PATO:0000001 ! quality holds_over_chain: RO:0002211 RO:0019000 @@ -9019,7 +9088,7 @@ is_a: RO:0002410 ! causally related to id: RO:0019001 name: positively regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 +property_value: terms:contributor https://orcid.org/0000-0002-8688-6599 holds_over_chain: RO:0002213 RO:0019001 is_a: RO:0019000 ! regulates characteristic @@ -9027,7 +9096,7 @@ is_a: RO:0019000 ! regulates characteristic id: RO:0019002 name: negatively regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 +property_value: terms:contributor https://orcid.org/0000-0002-8688-6599 holds_over_chain: RO:0002212 RO:0019001 holds_over_chain: RO:0002213 RO:0019002 is_a: RO:0019000 ! regulates characteristic diff --git a/omrse-full.owl b/omrse-full.owl index 0766fe0..db9f325 100644 --- a/omrse-full.owl +++ b/omrse-full.owl @@ -17,9 +17,10 @@ xmlns:terms="http://purl.org/dc/terms/" xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#" xmlns:subsets="http://purl.obolibrary.org/obo/ro/subsets#" - xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> + xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" + xmlns:language-individuals="http://purl.obolibrary.org/obo/omrse/language-individuals/"> - + Barry Smith Chris Stoeckert Daniel Welch @@ -41,7 +42,7 @@ Ontology for Modeling and Representation of Social Entities https://creativecommons.org/licenses/by/4.0/ This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's "meaningful use" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt - 2024-03-22 + 2024-08-09 @@ -676,7 +677,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 abbreviation - + @@ -689,7 +690,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 ambiguous synonym - + @@ -702,7 +703,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 dubious synonym - + @@ -716,7 +717,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 layperson synonym - + @@ -730,7 +731,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 plural form - + @@ -744,7 +745,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 UK spelling synonym - + @@ -757,7 +758,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 misspelling - + @@ -770,7 +771,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 misnomer - + @@ -784,7 +785,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-07-25 previous name - + @@ -798,7 +799,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-07-27 legal name - + @@ -811,8 +812,9 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-09-30 + INN International Nonproprietary Name - + @@ -826,7 +828,21 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-10-12 latin term - + + + + + + + + + NASA is an word acronym for the US National Aeronautics and Space Administration because the acronym is pronounced. FBI is an initialism (also known as alphabetism) for the US Federal Bureau of Investigation since the letters are pronounced one at a time. JPEG is an acronym for Joint Photographic Experts Group but does not count as a word acronym nor an initialism since it is mixed how it is pronounced. + A synonym type for describing abbreviations that are a part of the full name's words, such as initialisms or alphabetisms. + + + 2023-11-01 + acronym + @@ -991,6 +1007,12 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] + + + + + + @@ -1155,9 +1177,9 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] - + - + @@ -1545,6 +1567,60 @@ A continuant cannot have an occurrent as part: use 'participates in'. + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + @@ -1951,6 +2027,30 @@ It is important to note that this going out of existence of s is complete and un + + + + + + + Mathias Brochhausen + This is a primitive relation. This relation is the foundation to the owners right to have the owned entity at his/her full disposal. + owns + + + + + + + + + a is owned by b if b has complete power over a. All rights and obligations of ownership are grounded in this (primitive) relation. The claims and obligations of ownership can be partially transferred to a third party by the owner, b. + Reinach, A. Sämtliche Werke. Texkritische Ausgabe, München: Philosophia Verlag, 1989, p.189-204. + is owned by + + + + @@ -1995,6 +2095,7 @@ It is important to note that this going out of existence of s is complete and un + has_specified_output has_specified_output @@ -2031,6 +2132,8 @@ It is important to note that this going out of existence of s is complete and un + + is member of organization Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization. @@ -2049,6 +2152,7 @@ It is important to note that this going out of existence of s is complete and un + has organization member Relating an organization to a legal person or organization. @@ -4171,6 +4275,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4626,10 +4736,10 @@ For example, A and B may be gene products and binding of B by A positively regul A diagnostic testing device utilizes a specimen. X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. - - A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input. See github ticket https://github.com/oborel/obo-relations/issues/497 + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -4915,7 +5025,7 @@ For example, A and B may be gene products and binding of B by A positively regul Matthew Diller William R. Hogan A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification. - geographical migration of organism + geographical movement of organism @@ -5643,6 +5753,7 @@ For example, A and B may be gene products and binding of B by A positively regul (forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] (forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] + realizable realizable entity @@ -5781,7 +5892,10 @@ For example, A and B may be gene products and binding of B by A positively regul (iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. + characteristic specifically dependent continuant + https://github.com/OBOFoundry/COB/issues/65 + https://github.com/oborel/obo-relations/pull/284 @@ -6614,11 +6728,14 @@ Note: this definition was taken over from "geopolitical organization". - + + A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. molecular function GO:0003674 Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex. + This is the same as GO molecular function + gene product or complex activity molecular_function @@ -6658,6 +6775,7 @@ Note: this definition was taken over from "geopolitical organization". A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. + A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective. jl 2012-09-19T15:05:24Z Wikipedia:Biological_process @@ -6666,7 +6784,10 @@ Note: this definition was taken over from "geopolitical organization". single organism process single-organism process GO:0008150 + A biological process is an evolved process + Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. + biological process biological_process @@ -13383,7 +13504,7 @@ Note: this definition was taken over from "geopolitical organization". - + @@ -13430,7 +13551,7 @@ Note: this definition was taken over from "geopolitical organization". - + @@ -14266,7 +14387,7 @@ last accessed June 30, 2015 - + @@ -17157,16 +17278,6 @@ Somehow involves skilled nursing encounters - non-binary gender identity datum - A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender. - Paul Fabry - William Hogan - non-binary gender identity information content entity - Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.) - -Examples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) - obsolete non-binary gender identity datum - true @@ -18573,11 +18684,6 @@ It indicates that a person has completed only early childhood education and noth - A material entity consisting of multiple components that are causally integrated. - May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43 - - http://www.jbiomedsem.com/content/4/1/43 - system @@ -18909,204 +19015,5536 @@ It indicates that a person has completed only early childhood education and noth - + - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - + + + - + - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - + + + Аҧсуа бызшәа + Аҧсшәа + ab + abk + abk + Abkhazian + + + + + + + + + بهسا اچيه + ace + ace + Achinese + + + + + + + + + Lwo + ach + ach + Acoli + + + + + + + + + Dangme + ada + ada + Adangme + + + + + + + + + Adygei + Адыгабзэ + Кӏахыбзэ + ady + ady + Adyghe + + + + + + + + + El-Afrihili + afh + afh + Afrihili + + + + + + + + + Afrikaans + af + afr + afr + Afrikaans + + + + + + + + + アイヌ・イタㇰ + ain + ain + Ainu + + + + + + + + + Akan + ak + aka + aka + Akan + + + + + + + + + 𒀝𒅗𒁺𒌑 + akk + akk + Akkadian + + + + + + + + + Shqip + sq + alb + sqi + Albanian + + + + + + + + + Уна́ӈам тунуу́ + Унаӈан умсуу + ale + ale + Aleut + + + + + + + + + Алтай тили + alt + alt + Southern Altai + + + + + + + + + አማርኛ + am + amh + amh + Amharic + + + + + + + + + Anglisc + Englisc + Ænglisc + ang + ang + English, Old (ca.450–1100) + + + + + + + + + anp + anp + Angika + + + + + + + + + العَرَبِيَّة + ar + ara + ara + Arabic + + + + + + + + + Imperial Aramaic (700–300 BCE) + arc + arc + Official Aramaic (700–300 BCE) + + + + + + + + + aragonés + an + arg + arg + Aragonese + + + + + + + + + Հայերեն + Հայերէն + hy + arm + hye + Armenian + + + + + + + + + Mapuche + arn + arn + Mapudungun + + + + + + + + + Hinónoʼeitíít + arp + arp + Arapaho + + + + + + + + + Lokono + arw + arw + Arawak + + + + + + + + + অসমীয়া + as + asm + asm + Assamese + + + + + + + + + Asturianu + Asturleonese + Bable + Leonese + ast + ast + Asturian + + + + + + + + + Авар мацӏ + Магӏарул мацӏ + av + ava + ava + Avaric + + + + + + + + + ae + ave + ave + Avestan + + + + + + + + + अवधी + awa + awa + Awadhi + + + + + + + + + Aymar aru + ay + aym + aym + Aymara + + + + + + + + + Azərbaycan dili + Азәрбајҹан дили + آذربایجان دیلی + az + aze + aze + Azerbaijani + + + + + + + + + Başqort tele + Башҡорт теле + ba + bak + bak + Bashkir + + + + + + + + + بلوچی + bal + bal + Baluchi + + + + + + + + + ߓߊߡߊߣߊߣߞߊߣ + bm + bam + bam + Bambara + + + + + + + + + ᬩᬲᬩᬮᬶ + ᬪᬵᬱᬩᬮᬶ + ban + ban + Balinese + + + + + + + + + euskara + eu + 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Moldovan + limba română + ro + rum + ron + Romanian + + + + + + + + + Ikirundi + rn + run + run + Rundi + + + + + + + + + Arumanian + Macedo-Romanian + armãneashce + armãneashti + rrãmãneshti + rup + rup + Aromanian + + + + + + + + + русский язык + ru + rus + rus + Russian + + + + + + + + + Sandaweeki + sad + sad + Sandawe + + + + + + + + + yângâ tî sängö + sg + sag + sag + Sango + + + + + + + + + Сахалыы + sah + sah + Yakut + + + + + + + + + ארמית + sam + sam + Samaritan Aramaic + + + + + + + + + संस्कृतम् + sa + san + san + Sanskrit + + + + + + + + + sas + sas + Sasak + + + + + + + + + ᱥᱟᱱᱛᱟᱲᱤ + sat + sat + Santali + + + + + + + + + Sicilianu + scn + scn + Sicilian + + + + + + + + + Braid Scots + Lallans + sco + sco + Scots + + + + + + + + + sel + sel + Selkup + + + + + + + + + Goídelc + sga + sga + Irish, Old (to 900) + + + + + + + + + ၵႂၢမ်းတႆးယႂ် + shn + shn + Shan + + + + + + + + + Sidaamu Afoo + sid + sid + Sidamo + + + + + + + + + Sinhalese + සිංහල + si + sin + sin + Sinhala + + + + + + + + + slovenský jazyk + slovenčina + sk + slo + slk + Slovak + + + + + + + + + slovenski jezik + slovenščina + sl + slv + slv + Slovenian + + + + + + + + + Åarjelsaemien gïele + sma + sma + Southern Sami + + + + + + + + + davvisámegiella + se + sme + sme + Northern Sami + + + + + + + + + julevsámegiella + smj + smj + Lule Sami + + + + + + + + + anarâškielâ + smn + smn + Inari Sami + + + + + + + + + Gagana faʻa Sāmoa + sm + smo + smo + Samoan + + + + + + + + + sääʹmǩiõll + sms + sms + Skolt Sami + + + + + + + + + chiShona + sn + sna + sna + Shona + + + + + + + + + سنڌي + सिन्धी + ਸਿੰਧੀ + sd + snd + snd + Sindhi + + + + + + + + + Sooninkanxanne + snk + snk + Soninke + + + + + + + + + sog + sog + Sogdian + + + + + + + + + af Soomaali + so + som + som + Somali + + + + + + + + + Sesotho [southern] + st + sot + sot + Sotho, Southern + + + + + + + + + Castilian + castellano + español + es + spa + spa + Spanish + + + + + + + + + limba sarda + lingua sarda + sardu + sc + srd + srd + Sardinian + + + + + + + + + srn + srn + Sranan Tongo + + + + + + + + + srpski + српски + sr + srp + srp + Serbian + + + + + + + + + Seereer + srr + srr + Serer + + + + + + + + + siSwati + ss + ssw + ssw + Swati + + + + + + + + + Kɪsukuma + suk + suk + Sukuma + + + + + + + + + Basa Sunda + ᮘᮞ ᮞᮥᮔ᮪ᮓ + su + sun + sun + Sundanese + + + + + + + + + Sosoxui + sus + sus + Susu + + + + + + + + + 𒅴𒂠 + sux + sux + Sumerian + + + + + + + + + Kiswahili + sw + swa + swa + Swahili + + + + + + + + + svenska + sv + swe + swe + Swedish + + + + + + + + + syc + syc + Classical Syriac + + + + + + + + + ܠܫܢܐ ܣܘܪܝܝܐ + syr + syr + Syriac + + + + + + + + + Reo Mā'ohi + Reo Tahiti + ty + tah + tah + Tahitian + + + + + + + + + தமிழ் + ta + tam + tam + Tamil + + + + + + + + + tatar tele + татар теле + تاتار + tt + tat + tat + Tatar + + + + + + + + + తెలుగు + te + tel + tel + Telugu + + + + + + + + + KʌThemnɛ + tem + tem + Timne + + + + + + + + + Terêna + ter + ter + Tereno + + + + + + + + + Lia-Tetun + tet + tet + Tetum + + + + + + + + + tojikī + тоҷикӣ + tg + tgk + tgk + Tajik + + + + + + + + + Wikang Tagalog + tl + tgl + tgl + Tagalog + + + + + + + + + ภาษาไทย + th + tha + tha + Thai + + + + + + + + + ትግረ + ትግራይት + ትግሬ + ኻሳ + tig + tig + Tigre + + + + + + + + + ትግርኛ + ti + tir + tir + Tigrinya + + + + + + + + + tiv + tiv + Tiv + + + + + + + + + tkl + tkl + Tokelau + + + + + + + + + tlhIngan-Hol + tlh + tlh + Klingon + + + + + + + + + Lingít + tli + tli + Tlingit + + + + + + + + + tmh + tmh + Tamashek + + + + + + + + + chiTonga + tog + tog + Tonga (Nyasa) + + + + + + + + + lea faka-Tonga + to + ton + ton + Tonga (Tonga Islands) + + + + + + + + + tpi + tpi + Tok Pisin + + + + + + + + + tsi + tsi + Tsimshian + + + + + + + + + Setswana + tn + tsn + tsn + Tswana + + + + + + + + + Xitsonga + ts + tso + tso + Tsonga + + + + + + + + + Türkmençe + türkmen dili + Түркменче + түркмен дили + تورکمن تیلی + تورکمنچه + tk + tuk + tuk + Turkmen + + + + + + + + + chiTumbuka + tum + tum + Tumbuka + + + + + + + + + Türkçe + tr + tur + tur + Turkish + + + + + + + + + Te Gagana Tuuvalu + Te Ggana Tuuvalu + tvl + tvl + Tuvalu + + + + + + + + + tw + twi + twi + Twi + + + + + + + + + тыва дыл + tyv + tyv + Tuvinian + + + + + + + + + удмурт кыл + udm + udm + Udmurt + + + + + + + + + uga + uga + Ugaritic + + + + + + + + + Uyghur + ئۇيغۇر تىلى + ئۇيغۇرچە + ug + uig + uig + Uighur + + + + + + + + + українська мова + uk + ukr + ukr + Ukrainian + + + + + + + + + Úmbúndú + umb + umb + Umbundu + + + + + + + + + اُردُو + ur + urd + urd + Urdu + + + + + + + + + Oʻzbekcha + oʻzbek tili + ўзбек тили + ўзбекча + ئوبېک تیلی + ئوزبېچه + uz + uzb + uzb + Uzbek + + + + + + + + + ꕙꔤ + vai + vai + Vai + + + + + + + + + Tshivenḓa + ve + ven + ven + Venda + + + + + + + + + Tiếng Việt + vi + vie + vie + Vietnamese + + + + + + + + + vo + vol + vol + Volapük + + + + + + + + + vađđa ceeli + vot + vot + Votic + + + + + + + + + Walamo + Wolaytta + wal + wal + Wolaitta + + + + + + + + + Binisayâ nga Samar-Leyte + Binisayâ nga Winaray + Lineyte-Samarnon + Samareño + Winaray + “Binisayâ nga Waray” + war + war + Waray + + + + + + + + + wá:šiw ʔítlu + was + was + Washo + + + + + + + + + Walon + wa + wln + wln + Walloon + + + + + + + + + wo + wol + wol + Wolof + + + + + + + + + Oirat + Xaľmg keln + Хальмг келн + xal + xal + Kalmyk + + + + + + + + + isiXhosa + xh + xho + xho + Xhosa + + + + + + + + + yao + yao + Yao + + + + + + + + + yap + yap + Yapese + + + + + + + + + אידיש + ייִדיש + יידיש + yi + yid + yid + Yiddish + + + + + + + + + èdè Yorùbá + yo + yor + yor + Yoruba + + + + + + + + + Diidxazá + zap + zap + Zapotec + + + + + + + + + Bliss + Blissymbolics + zbl + zbl + Blissymbols + + + + + + + + + Tuḍḍungiyya + zen + zen + Zenaga + + + + + + + + + ⵜⴰⵎⴰⵣⵉⵖⵜ ⵜⴰⵏⴰⵡⴰⵢⵜ + zgh + zgh + Standard Moroccan Tamazight + + + + + + + + + Chuang + Vahcuengh + 話僮 + za + zha + zha + Zhuang + + + + + + + + + isiZulu + zu + zul + zul + Zulu + + + + + + + + + Shiwi'ma + zun + zun + Zuni + + + + + + + + + Dimili + Dimli + Kirdki + Kirmanjki + Zazaki + zza + zza + Zaza + + + + + + + + non-binary gender identity datum + A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender. + Paul Fabry + William Hogan + Afaraf + Qafar af + Qafaraf + ’Afar Af + non-binary gender identity information content entity + aa + aar + aar + Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.) + +Examples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) + Afar + obsolete non-binary gender identity datum + true + + + A material entity consisting of multiple components that are causally integrated. + May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43 + + http://www.jbiomedsem.com/content/4/1/43 + system + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + @@ -19114,8 +24552,8 @@ It indicates that a person has completed only early childhood education and noth - - + + @@ -19377,7 +24815,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -19387,8 +24825,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19398,8 +24836,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19416,8 +24854,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19436,7 +24874,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -19446,8 +24884,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19457,8 +24895,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19475,8 +24913,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19492,8 +24930,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19503,7 +24941,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -19513,8 +24951,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19524,8 +24962,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19544,8 +24982,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19563,8 +25001,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19574,8 +25012,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19585,8 +25023,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19603,8 +25041,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19621,8 +25059,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19632,8 +25070,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19643,8 +25081,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19661,8 +25099,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19679,8 +25117,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19690,8 +25128,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19701,8 +25139,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19719,8 +25157,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19736,9 +25174,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19747,9 +25185,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19764,8 +25202,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19781,9 +25219,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19792,9 +25230,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19809,8 +25247,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19826,9 +25264,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19837,9 +25275,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19854,8 +25292,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19871,9 +25309,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19882,9 +25320,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19899,8 +25337,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19916,9 +25354,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19927,9 +25365,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19944,8 +25382,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19961,9 +25399,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19972,9 +25410,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19989,7 +25427,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -19999,7 +25437,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20017,9 +25455,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20028,9 +25466,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20045,7 +25483,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20055,7 +25493,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20072,7 +25510,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20083,7 +25521,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20116,9 +25554,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20127,9 +25565,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20144,8 +25582,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -20160,9 +25598,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20171,9 +25609,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20187,9 +25625,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20204,7 +25642,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20215,7 +25653,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20231,7 +25669,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20248,9 +25686,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20259,9 +25697,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20293,8 +25731,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -20304,8 +25742,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -20332,5 +25770,5 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + diff --git a/omrse.json b/omrse.json index 76f0769..5374c72 100644 --- a/omrse.json +++ b/omrse.json @@ -67,1429 +67,1057 @@ "val" : "This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's \"meaningful use\" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2024-03-22" + "val" : "2024-08-09" } ], - "version" : "http://purl.obolibrary.org/obo/omrse/releases/2024-03-22/omrse.json" + "version" : "http://purl.obolibrary.org/obo/omrse/releases/2024-08-09/omrse.json" }, "nodes" : [ { - "id" : "http://purl.obolibrary.org/obo/IAO_0000002", - "lbl" : "example to be eventually removed", - "type" : "INDIVIDUAL", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "example to be eventually removed" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000078", - "lbl" : "curation status specification", + "id" : "http://purl.obolibary.org/obo/IAO_0021001", + "lbl" : "obsolete_deontic document act", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." + "val" : "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "curation status specification" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my filling in an immigration form, a judge's signing and stamping a court order" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Bill Bug" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBI_0000266" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000103", - "lbl" : "failed exploratory term", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000008", + "lbl" : "software development", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The term was used in an attempt to structure part of the ontology but in retrospect failed to do a good job" + "val" : "A planned process that has specified output a software product and that involves the creation of source code." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "failed exploratory term" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Software_development" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A planned process resulting in a software product involving the creation of source code." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000225", - "lbl" : "obsolescence reason specification", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000032", + "lbl" : "count", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." + "val" : "A measurement datum that is the output of counting." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obsolescence reason specification" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A measurement datum that is the output of counting." } ] } }, { - "id" : "http://www.w3.org/2002/07/owl#Thing" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000120", - "lbl" : "metadata complete", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000033", + "lbl" : "counting", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Class has all its metadata, but is either not guaranteed to be in its final location in the asserted IS_A hierarchy or refers to another class that is not complete." + "val" : "The planned process of finding the number of elements in a finite set of objects." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "metadata complete" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Counting" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "The planned process of finding the number of elements in a finite set of objects." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000121", - "lbl" : "organizational term", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000480", + "lbl" : "geographical movement of organism", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Term created to ease viewing/sort terms for development purpose, and will not be included in a release" + "val" : "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "organizational term" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000122", - "lbl" : "ready for release", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000522", + "lbl" : "source code repository", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Class has undergone final review, is ready for use, and will be included in the next release. Any class lacking \"ready_for_release\" should be considered likely to change place in hierarchy, have its definition refined, or be obsoleted in the next release. Those classes deemed \"ready_for_release\" will also derived from a chain of ancestor classes that are also \"ready_for_release.\"" + "val" : "A document that comprises at least one source code module and provenance data about who contributed the set of files making up the module(s), and optionally comprises also multiple versions of files with detailed change history about who committed files and when, a license for the software, readme files, documentation, executables, etc." }, + "comments" : [ "Refers to the stuff that lives on GitHub, not to GitHub or the git software on which it is based" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ready for release" + "val" : "software source code version control repository" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000123", - "lbl" : "metadata incomplete", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000524", + "lbl" : "compiling software", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors." + "val" : "A planned process that converts human-written or curated software into a machine-executable or interpretable set of instructions." }, + "comments" : [ "It's compiling \"software\" (scare quotes) and not \"source code\" because you can compile Java bytecode to machine code, and Java bytecode is not technically \"source code\". Compiling source code would be a subclass of this class (as would compiling Java bytecode, etc.).", "Source code can be automatically generated to some extent, but we're assuming humans still curate it minimally. Also, in the case of Java and its JVM, it's machine interpretable instructions, not directly executable. Ditto for other languages with intermediate form like Java byte code." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "metadata incomplete" + "val" : "process of compiling software" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000124", - "lbl" : "uncurated", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000532", + "lbl" : "human travel", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Nothing done yet beyond assigning a unique class ID and proposing a preferred term." + "val" : "A geographical migration of an organism belonging to the species Homo sapiens." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "uncurated" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000125", - "lbl" : "pending final vetting", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000796", + "lbl" : "dataset creating", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "All definitions, placement in the asserted IS_A hierarchy and required minimal metadata are complete. The class is awaiting a final review by someone other than the term editor." + "val" : "A planned process that has a data set as its specified output." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "pending final vetting" + "val" : "creating a data set" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000226", - "lbl" : "placeholder removed", - "type" : "INDIVIDUAL", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "placeholder removed" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data set creation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "dataset creation" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000227", - "lbl" : "terms merged", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000001", + "lbl" : "entity", + "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "terms merged" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "Entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Julius Caesar" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Verdi’s Requiem" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the Second World War" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "your body mass index" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "An editor note should explain what were the merged terms and the reason for the merge." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000228", - "lbl" : "term imported", - "type" : "INDIVIDUAL", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "term imported" + "val" : "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This is to be used when the original term has been replaced by a term imported from an other ontology. An editor note should indicate what is the URI of the new term to use." + "val" : "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000229", - "lbl" : "term split", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000002", + "lbl" : "continuant", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "term split" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "continuant" + }, { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "Continuant" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This is to be used when a term has been split in two or more new terms. An editor note should indicate the reason for the split and indicate the URIs of the new terms created." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000410", - "lbl" : "universal", - "type" : "INDIVIDUAL", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "universal" + "val" : "BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Hard to give a definition for. Intuitively a \"natural kind\" rather than a collection of any old things, which a class is able to be, formally. At the meta level, universals are defined as positives, are disjoint with their siblings, have single asserted parents." + "val" : "Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "A Formal Theory of Substances, Qualities, and Universals, http://ontology.buffalo.edu/bfo/SQU.pdf" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000409", - "lbl" : "denotator type", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A denotator type indicates how a term should be interpreted from an ontological perspective." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "denotator type" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are \"natural kinds\" and the latter arbitrary collections of entities." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Barry Smith, Werner Ceusters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] " + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000420", - "lbl" : "defined class", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000003", + "lbl" : "occurrent", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A defined class is a class that is defined by a set of logically necessary and sufficient conditions but is not a universal" + "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "defined class" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "occurrent" + }, { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "Occurrent" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "\"definitions\", in some readings, always are given by necessary and sufficient conditions. So one must be careful (and this is difficult sometimes) to distinguish between defined classes and universal." + "val" : "BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000421", - "lbl" : "named class expression", - "type" : "INDIVIDUAL", - "meta" : { - "definition" : { - "val" : "A named class expression is a logical expression that is given a name. The name can be used in place of the expression." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "named class expression" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "named class expressions are used in order to have more concise logical definition but their extensions may not be interesting classes on their own. In languages such as OWL, with no provisions for macros, these show up as actuall classes. Tools may with to not show them as such, and to replace uses of the macros with their expansions" + "val" : "Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000423", - "lbl" : "to be replaced with external ontology term", - "type" : "INDIVIDUAL", - "meta" : { - "definition" : { - "val" : "Terms with this status should eventually replaced with a term from another ontology." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "to be replaced with external ontology term" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "group:OBI" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000428", - "lbl" : "requires discussion", - "type" : "INDIVIDUAL", - "meta" : { - "definition" : { - "val" : "A term that is metadata complete, has been reviewed, and problems have been identified that require discussion before release. Such a term requires editor note(s) to identify the outstanding issues." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "requires discussion" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "group:OBI" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] " + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMO_0001000", - "lbl" : "out of scope", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000004", + "lbl" : "independent continuant", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The term was added to the ontology on the assumption it was in scope, but it turned out later that it was not." + "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" }, + "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This obsolesence reason should be used conservatively. Typical valid examples are: un-necessary grouping classes in disease ontologies, a phenotype term added on the assumption it was a disease." + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "ic" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "http://orcid.org/0000-0001-5208-3432" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "IndependentContinuant" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/77" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a chair" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "https://orcid.org/0000-0001-5208-3432" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a heart" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a leg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a molecule" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a spatial region" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "an atom" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "an orchestra." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "an organism" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the bottom right portion of a human torso" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the interior of your mouth" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] " + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMO_0001002", - "lbl" : "domain entity does not exist", - "type" : "INDIVIDUAL", + "id" : "http://purl.obolibrary.org/obo/BFO_0000006", + "lbl" : "spatial region", + "type" : "CLASS", "meta" : { - "definition" : { - "val" : "The term was added to the ontology on the assumption it was a valid domain entity, but it turns out the entity does not exist in reality." - }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "s-region" + }, { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "SpatialRegion" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This obsolesence reason should be used conservatively. For example: Obsoleting class that describes a breed of cow based on a record in an existing database, that was later retracted as faulty (breed does not exist). Do not use this term to obsolete a historic concept (that was once valid, but not anymore). " + "val" : "BFO 2 Reference: Spatial regions do not participate in processes." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "http://orcid.org/0000-0002-4142-7153" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/136" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "https://orcid.org/0000-0002-4142-7153" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] " + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibary.org/obo/IAO_0021001", - "lbl" : "obsolete_deontic document act", + "id" : "http://purl.obolibrary.org/obo/BFO_0000008", + "lbl" : "temporal region", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my filling in an immigration form, a judge's signing and stamping a court order" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000008", - "lbl" : "software development", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A planned process that has specified output a software product and that involves the creation of source code." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Software_development" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A planned process resulting in a software product involving the creation of source code." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000032", - "lbl" : "count", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A measurement datum that is the output of counting." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A measurement datum that is the output of counting." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000033", - "lbl" : "counting", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The planned process of finding the number of elements in a finite set of objects." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Counting" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "t-region" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "The planned process of finding the number of elements in a finite set of objects." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000480", - "lbl" : "geographical migration of organism", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "TemporalRegion" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000522", - "lbl" : "source code repository", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A document that comprises at least one source code module and provenance data about who contributed the set of files making up the module(s), and optionally comprises also multiple versions of files with detailed change history about who committed files and when, a license for the software, readme files, documentation, executables, etc." - }, - "comments" : [ "Refers to the stuff that lives on GitHub, not to GitHub or the git software on which it is based" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "software source code version control repository" + "val" : "A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000524", - "lbl" : "compiling software", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A planned process that converts human-written or curated software into a machine-executable or interpretable set of instructions." - }, - "comments" : [ "It's compiling \"software\" (scare quotes) and not \"source code\" because you can compile Java bytecode to machine code, and Java bytecode is not technically \"source code\". Compiling source code would be a subclass of this class (as would compiling Java bytecode, etc.).", "Source code can be automatically generated to some extent, but we're assuming humans still curate it minimally. Also, in the case of Java and its JVM, it's machine interpretable instructions, not directly executable. Ditto for other languages with intermediate form like Java byte code." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "process of compiling software" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000532", - "lbl" : "human travel", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A geographical migration of an organism belonging to the species Homo sapiens." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000796", - "lbl" : "dataset creating", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A planned process that has a data set as its specified output." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "creating a data set" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002] " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001] " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data set creation" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001] " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "dataset creation" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000001", - "lbl" : "entity", + "id" : "http://purl.obolibrary.org/obo/BFO_0000009", + "lbl" : "two-dimensional spatial region", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "entity" + "val" : "2d-s-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Julius Caesar" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Verdi’s Requiem" + "val" : "TwoDimensionalSpatialRegion" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the Second World War" + "val" : "an infinitely thin plane in space." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "your body mass index" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" + "val" : "the surface of a sphere-shaped part of space" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" + "val" : "A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000002", - "lbl" : "continuant", + "id" : "http://purl.obolibrary.org/obo/BFO_0000011", + "lbl" : "spatiotemporal region", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "continuant" + "val" : "st-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Continuant" + "val" : "SpatiotemporalRegion" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the spatiotemporal region occupied by a human life" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the spatiotemporal region occupied by a process of cellular meiosis." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the spatiotemporal region occupied by the development of a cancer tumor" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])" + "val" : "A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])" + "val" : "All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])" + "val" : "Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])" + "val" : "Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every spatiotemporal region occupies_spatiotemporal_region itself." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] " + "val" : "(forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] " + "val" : "(forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] " + "val" : "(forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] " + "val" : "(forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000003", - "lbl" : "occurrent", + "id" : "http://purl.obolibrary.org/obo/BFO_0000015", + "lbl" : "process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An entity that has temporal parts and that happens, unfolds or develops through time." + "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" }, + "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "occurrent" + "val" : "process" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Occurrent" + "val" : "Process" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a process of cell-division, \\ a beating of the heart" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a process of meiosis" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a process of sleeping" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the course of a disease" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the flight of a bird" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the life of an organism" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "your process of aging." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] " + "val" : "(iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000004", - "lbl" : "independent continuant", + "id" : "http://purl.obolibrary.org/obo/BFO_0000016", + "lbl" : "disposition", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" - }, - "comments" : [ "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "ic" + "val" : "disposition" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "IndependentContinuant" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a chair" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a heart" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a leg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a molecule" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a spatial region" + "val" : "Disposition" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an atom" + "val" : "an atom of element X has the disposition to decay to an atom of element Y" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an orchestra." + "val" : "certain people have a predisposition to colon cancer" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an organism" + "val" : "children are innately disposed to categorize objects in certain ways." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the bottom right portion of a human torso" + "val" : "the cell wall is disposed to filter chemicals in endocytosis and exocytosis" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the interior of your mouth" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] " + "val" : "If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] " + "val" : "(forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] " + "val" : "(forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000006", - "lbl" : "spatial region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000017", + "lbl" : "realizable entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "s-region" + "val" : "realizable" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "SpatialRegion" + "val" : "RealizableEntity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Spatial regions do not participate in processes." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the disposition of this piece of metal to conduct electricity." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the disposition of your blood to coagulate" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the function of your reproductive organs" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the role of being a doctor" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the role of this boundary to delineate where Utah and Colorado meet" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])" + "val" : "To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])" + "val" : "All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] " + "val" : "(forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] " + "val" : "(forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000008", - "lbl" : "temporal region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000018", + "lbl" : "zero-dimensional spatial region", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "t-region" + "val" : "0d-s-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "TemporalRegion" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional" + "val" : "ZeroDimensionalSpatialRegion" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002] " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001] " + "val" : "A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001] " + "val" : "(forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000009", - "lbl" : "two-dimensional spatial region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000019", + "lbl" : "quality", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "2d-s-region" + "val" : "quality" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "TwoDimensionalSpatialRegion" + "val" : "Quality" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an infinitely thin plane in space." + "val" : "the ambient temperature of this portion of air" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the surface of a sphere-shaped part of space" + "val" : "the color of a tomato" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the length of the circumference of your waist" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the mass of this piece of gold." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the shape of your nose" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the shape of your nostril" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001])" + "val" : "a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001])" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001] " + "val" : "(forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001] " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000011", - "lbl" : "spatiotemporal region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000020", + "lbl" : "specifically dependent continuant", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" + }, + "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "st-region" + "val" : "sdc" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "SpatiotemporalRegion" + "val" : "SpecificallyDependentContinuant" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the spatiotemporal region occupied by a human life" + "val" : "Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the spatiotemporal region occupied by a process of cellular meiosis." + "val" : "of one-sided specifically dependent continuants: the mass of this tomato" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the spatiotemporal region occupied by the development of a cancer tumor" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001])" + "val" : "of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the disposition of this fish to decay" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the function of this heart: to pump blood" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the mutual dependence of proton donors and acceptors in chemical reactions [79" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every spatiotemporal region occupies_spatiotemporal_region itself." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the pink color of a medium rare piece of grilled filet mignon at its center" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the role of being a doctor" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the shape of this hole." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the smell of this portion of mozzarella" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001] " + "val" : "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/OBOFoundry/COB/issues/65" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/oborel/obo-relations/pull/284" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000015", - "lbl" : "process", + "id" : "http://purl.obolibrary.org/obo/BFO_0000023", + "lbl" : "role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" + "val" : "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." }, - "comments" : [ "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "process" + "val" : "role" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Process" + "val" : "Role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a process of cell-division, \\ a beating of the heart" + "val" : "John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a process of meiosis" + "val" : "the priest role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a process of sleeping" + "val" : "the role of a boundary to demarcate two neighboring administrative territories" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the course of a disease" + "val" : "the role of a building in serving as a military target" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the flight of a bird" + "val" : "the role of a stone in marking a property boundary" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the life of an organism" + "val" : "the role of subject in a clinical trial" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "your process of aging." + "val" : "the student role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)" + "val" : "BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] " + "val" : "(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000016", - "lbl" : "disposition", + "id" : "http://purl.obolibrary.org/obo/BFO_0000024", + "lbl" : "fiat object part", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "disposition" + "val" : "fiat-object-part" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Disposition" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an atom of element X has the disposition to decay to an atom of element Y" + "val" : "FiatObjectPart" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "certain people have a predisposition to colon cancer" + "val" : "or with divisions drawn by cognitive subjects for practical reasons, such as the division of a cake (before slicing) into (what will become) slices (and thus member parts of an object aggregate). However, this does not mean that fiat object parts are dependent for their existence on divisions or delineations effected by cognitive subjects. If, for example, it is correct to conceive geological layers of the Earth as fiat object parts of the Earth, then even though these layers were first delineated in recent times, still existed long before such delineation and what holds of these layers (for example that the oldest layers are also the lowest layers) did not begin to hold because of our acts of delineation.Treatment of material entity in BFOExamples viewed by some as problematic cases for the trichotomy of fiat object part, object, and object aggregate include: a mussel on (and attached to) a rock, a slime mold, a pizza, a cloud, a galaxy, a railway train with engine and multiple carriages, a clonal stand of quaking aspen, a bacterial community (biofilm), a broken femur. Note that, as Aristotle already clearly recognized, such problematic cases – which lie at or near the penumbra of instances defined by the categories in question – need not invalidate these categories. The existence of grey objects does not prove that there are not objects which are black and objects which are white; the existence of mules does not prove that there are not objects which are donkeys and objects which are horses. It does, however, show that the examples in question need to be addressed carefully in order to show how they can be fitted into the proposed scheme, for example by recognizing additional subdivisions [29" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "children are innately disposed to categorize objects in certain ways." + "val" : "the FMA:regional parts of an intact human body." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the cell wall is disposed to filter chemicals in endocytosis and exocytosis" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000017", - "lbl" : "realizable entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "realizable" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "RealizableEntity" + "val" : "the Western hemisphere of the Earth" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the disposition of this piece of metal to conduct electricity." + "val" : "the division of the brain into regions" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the disposition of your blood to coagulate" + "val" : "the division of the planet into hemispheres" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the function of your reproductive organs" + "val" : "the dorsal and ventral surfaces of the body" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of being a doctor" + "val" : "the upper and lower lobes of the left lung" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of this boundary to delineate where Utah and Colorado meet" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: Most examples of fiat object parts are associated with theoretically drawn divisions" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] " + "val" : "b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] " + "val" : "(forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000018", - "lbl" : "zero-dimensional spatial region", + "id" : "http://purl.obolibrary.org/obo/BFO_0000026", + "lbl" : "one-dimensional spatial region", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "0d-s-region" + "val" : "1d-s-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ZeroDimensionalSpatialRegion" + "val" : "OneDimensionalSpatialRegion" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "an edge of a cube-shaped portion of space." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001])" + "val" : "A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001] " + "val" : "(forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000019", - "lbl" : "quality", + "id" : "http://purl.obolibrary.org/obo/BFO_0000027", + "lbl" : "object aggregate", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "quality" + "val" : "object-aggregate" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Quality" + "val" : "ObjectAggregate" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the ambient temperature of this portion of air" + "val" : "a collection of cells in a blood biobank." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the color of a tomato" + "val" : "a swarm of bees is an aggregate of members who are linked together through natural bonds" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the length of the circumference of your waist" + "val" : "a symphony orchestra" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the mass of this piece of gold." + "val" : "an organization is an aggregate whose member parts have roles of specific types (for example in a jazz band, a chess club, a football team)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the shape of your nose" + "val" : "defined by fiat: the aggregate of members of an organization" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the shape of your nostril" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001] " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000020", - "lbl" : "specifically dependent continuant", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" - }, - "comments" : [ "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "sdc" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "SpecificallyDependentContinuant" + "val" : "defined through physical attachment: the aggregate of atoms in a lump of granite" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key" + "val" : "defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "of one-sided specifically dependent continuants: the mass of this tomato" + "val" : "defined via attributive delimitations such as: the patients in this hospital" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates." + "val" : "the aggregate of bearings in a constant velocity axle joint" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the disposition of this fish to decay" + "val" : "the aggregate of blood cells in your body" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the function of this heart: to pump blood" + "val" : "the nitrogen atoms in the atmosphere" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the mutual dependence of proton donors and acceptors in chemical reactions [79" + "val" : "the restaurants in Palo Alto" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction" + "val" : "your collection of Meissen ceramic plates." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the pink color of a medium rare piece of grilled filet mignon at its center" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of being a doctor" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the shape of this hole." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: object aggregates may gain and lose parts while remaining numerically identical (one and the same individual) over time. This holds both for aggregates whose membership is determined naturally (the aggregate of cells in your body) and aggregates determined by fiat (a baseball team, a congressional committee)." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the smell of this portion of mozzarella" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " + "val" : "(forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000023", - "lbl" : "role", + "id" : "http://purl.obolibrary.org/obo/BFO_0000028", + "lbl" : "three-dimensional spatial region", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "role" + "val" : "3d-s-region" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the priest role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of a boundary to demarcate two neighboring administrative territories" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of a building in serving as a military target" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of a stone in marking a property boundary" + "val" : "ThreeDimensionalSpatialRegion" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role of subject in a clinical trial" + "val" : "a cube-shaped region of space" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the student role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives." + "val" : "a sphere-shaped region of space," }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])" + "val" : "A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001])" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] " + "val" : "(forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001] " }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000024", - "lbl" : "fiat object part", + "id" : "http://purl.obolibrary.org/obo/BFO_0000029", + "lbl" : "site", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "fiat-object-part" + "val" : "site" }, { "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "FiatObjectPart" + "val" : "Site" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "or with divisions drawn by cognitive subjects for practical reasons, such as the division of a cake (before slicing) into (what will become) slices (and thus member parts of an object aggregate). However, this does not mean that fiat object parts are dependent for their existence on divisions or delineations effected by cognitive subjects. If, for example, it is correct to conceive geological layers of the Earth as fiat object parts of the Earth, then even though these layers were first delineated in recent times, still existed long before such delineation and what holds of these layers (for example that the oldest layers are also the lowest layers) did not begin to hold because of our acts of delineation.Treatment of material entity in BFOExamples viewed by some as problematic cases for the trichotomy of fiat object part, object, and object aggregate include: a mussel on (and attached to) a rock, a slime mold, a pizza, a cloud, a galaxy, a railway train with engine and multiple carriages, a clonal stand of quaking aspen, a bacterial community (biofilm), a broken femur. Note that, as Aristotle already clearly recognized, such problematic cases – which lie at or near the penumbra of instances defined by the categories in question – need not invalidate these categories. The existence of grey objects does not prove that there are not objects which are black and objects which are white; the existence of mules does not prove that there are not objects which are donkeys and objects which are horses. It does, however, show that the examples in question need to be addressed carefully in order to show how they can be fitted into the proposed scheme, for example by recognizing additional subdivisions [29" + "val" : "Manhattan Canyon)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the FMA:regional parts of an intact human body." + "val" : "a hole in the interior of a portion of cheese" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the Western hemisphere of the Earth" + "val" : "a rabbit hole" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the division of the brain into regions" + "val" : "an air traffic control region defined in the airspace above an airport" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the division of the planet into hemispheres" + "val" : "the Grand Canyon" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the dorsal and ventral surfaces of the body" + "val" : "the Piazza San Marco" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the upper and lower lobes of the left lung" + "val" : "the cockpit of an aircraft" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Most examples of fiat object parts are associated with theoretically drawn divisions" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000026", - "lbl" : "one-dimensional spatial region", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "1d-s-region" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "OneDimensionalSpatialRegion" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an edge of a cube-shaped portion of space." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000027", - "lbl" : "object aggregate", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "object-aggregate" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ObjectAggregate" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a collection of cells in a blood biobank." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a swarm of bees is an aggregate of members who are linked together through natural bonds" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a symphony orchestra" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an organization is an aggregate whose member parts have roles of specific types (for example in a jazz band, a chess club, a football team)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "defined by fiat: the aggregate of members of an organization" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "defined through physical attachment: the aggregate of atoms in a lump of granite" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "defined via attributive delimitations such as: the patients in this hospital" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the aggregate of bearings in a constant velocity axle joint" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the aggregate of blood cells in your body" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the nitrogen atoms in the atmosphere" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the restaurants in Palo Alto" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "your collection of Meissen ceramic plates." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: object aggregates may gain and lose parts while remaining numerically identical (one and the same individual) over time. This holds both for aggregates whose membership is determined naturally (the aggregate of cells in your body) and aggregates determined by fiat (a baseball team, a congressional committee)." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000028", - "lbl" : "three-dimensional spatial region", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "3d-s-region" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ThreeDimensionalSpatialRegion" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a cube-shaped region of space" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a sphere-shaped region of space," - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001])" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000029", - "lbl" : "site", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "site" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "Site" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Manhattan Canyon)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a hole in the interior of a portion of cheese" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a rabbit hole" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "an air traffic control region defined in the airspace above an airport" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the Grand Canyon" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the Piazza San Marco" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the cockpit of an aircraft" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the hold of a ship" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the hold of a ship" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", "val" : "the interior of a kangaroo pouch" @@ -1797,313 +1425,56 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000050", - "lbl" : "part of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/BFO_0000140", + "lbl" : "continuant fiat boundary", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "a core relation that holds between a part and its whole" + "val" : "b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_gp2term", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is part of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my brain is part of my body (continuant parthood, two material entities)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "cf-boundary" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this day is part of this year (occurrent parthood)" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "ContinuantFiatBoundary" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other." + "val" : "BFO 2 Reference: In BFO 1.1 the assumption was made that the external surface of a material entity such as a cell could be treated as if it were a boundary in the mathematical sense. The new document propounds the view that when we talk about external surfaces of material objects in this way then we are talking about something fiat. To be dealt with in a future version: fiat boundaries at different levels of granularity.More generally, the focus in discussion of boundaries in BFO 2.0 is now on fiat boundaries, which means: boundaries for which there is no assumption that they coincide with physical discontinuities. The ontology of boundaries becomes more closely allied with the ontology of regions." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" + "val" : "BFO 2 Reference: a continuant fiat boundary is a boundary of some material entity (for example: the plane separating the Northern and Southern hemispheres; the North Pole), or it is a boundary of some immaterial entity (for example of some portion of airspace). Three basic kinds of continuant fiat boundary can be distinguished (together with various combination kinds [29" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "part_of" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000002" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000003" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000017" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000019" + "val" : "Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions." }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000020" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", + "val" : "Every continuant fiat boundary is located at some spatial region at every time at which it exists" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0040042", - "val" : "http://purl.obolibrary.org/obo/BFO_0000031" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", + "val" : "(iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001] " }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000141", + "lbl" : "immaterial entity", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", + "val" : "immaterial" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:PartOf" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", + "val" : "ImmaterialEntity" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:part_of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Part_of" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000051", - "lbl" : "has part", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "a core relation that holds between a whole and its part" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has part" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my body has part my brain (continuant parthood, two material entities)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this year has part this day (occurrent parthood)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)\n\nA continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_part" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000054", - "lbl" : "realized in", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "realized in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this disease is realized in this disease course" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this fragility is realized in this shattering" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigator role is realized in this investigation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is realized by" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "realized_in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/ro.owl" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "[copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000055", - "lbl" : "realizes", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "realizes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this disease course realizes this disease" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigation realizes this investigator role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this shattering realizes this fragility" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000062", - "lbl" : "preceded by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "preceded by" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is preceded by" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "preceded_by" - }, { - "pred" : "http://purl.org/dc/terms/source", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000063", - "lbl" : "precedes", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "precedes" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000066", - "lbl" : "occurs in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" - }, - "comments" : [ "Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant" ], - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "occurs in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "occurs_in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "unfolds in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "unfolds_in" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Occurs_in" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000067", - "lbl" : "contains process", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "[copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" - }, - "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "site of" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000140", - "lbl" : "continuant fiat boundary", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "cf-boundary" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ContinuantFiatBoundary" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: In BFO 1.1 the assumption was made that the external surface of a material entity such as a cell could be treated as if it were a boundary in the mathematical sense. The new document propounds the view that when we talk about external surfaces of material objects in this way then we are talking about something fiat. To be dealt with in a future version: fiat boundaries at different levels of granularity.More generally, the focus in discussion of boundaries in BFO 2.0 is now on fiat boundaries, which means: boundaries for which there is no assumption that they coincide with physical discontinuities. The ontology of boundaries becomes more closely allied with the ontology of regions." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: a continuant fiat boundary is a boundary of some material entity (for example: the plane separating the Northern and Southern hemispheres; the North Pole), or it is a boundary of some immaterial entity (for example of some portion of airspace). Three basic kinds of continuant fiat boundary can be distinguished (together with various combination kinds [29" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000601", - "val" : "Every continuant fiat boundary is located at some spatial region at every time at which it exists" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000602", - "val" : "(iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001] " - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000141", - "lbl" : "immaterial entity", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", - "val" : "immaterial" - }, { - "pred" : "http://purl.obolibrary.org/obo/BFO_0000180", - "val" : "ImmaterialEntity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/bfo.owl" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { @@ -2305,38 +1676,9 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000179", - "lbl" : "BFO OWL specification label", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Really of interest to developers only" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000180", - "lbl" : "BFO CLIF specification label", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Really of interest to developers only" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/BFO_0000182", - "lbl" : "history", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000182", + "lbl" : "history", + "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/BFO_0000179", @@ -2399,7 +1741,7 @@ "val" : "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.", "xrefs" : [ "GOC:pdt" ] }, - "comments" : [ "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex." ], + "comments" : [ "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.", "This is the same as GO molecular function" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "molecular function" @@ -2425,10 +1767,9 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.", - "xrefs" : [ "GOC:pdt" ] + "val" : "A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective." }, - "comments" : [ "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this." ], + "comments" : [ "A biological process is an evolved process", "Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.", "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this." ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "biological process" @@ -2529,10 +1870,6 @@ "val" : "PERSON: Melanie Courtot" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000004", - "lbl" : "has measurement value", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/IAO_0000005", "lbl" : "objective specification", @@ -3260,10 +2597,6 @@ "val" : "group:OBI" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000039", - "lbl" : "has measurement unit label", - "type" : "PROPERTY" }, { "id" : "http://purl.obolibrary.org/obo/IAO_0000047", "lbl" : "obsolete2_text based digital entity", @@ -3464,6 +2797,34 @@ "val" : "group:OBI" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000078", + "lbl" : "curation status specification", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "curation status specification" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Bill Bug" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "OBI_0000266" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/IAO_0000079", "lbl" : "density plot", @@ -3915,1142 +3276,1222 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000111", - "lbl" : "editor preferred term", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000128", + "lbl" : "obsolete_identifier", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000121" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "_identifier is a container under information content entity for collecting types of terms to indicate a specific instance or clas of what was used or participated in an investigation. Identifiers are borne by a product or its packaging, and can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots.\n\nNote: everybody agreed that identifier is probably a too general term. We however felt that it would be appropriate to group \"identifiying\" terms under some kind of umbrella. We therefore propose to use _identifier for that purpose. As per OBI conventions, the _ prefixing identifier indicates that this is a helper class and shouldn't be considered as final." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000129", + "lbl" : "version number", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)" + "val" : "A version number is an information content entity which is a sequence of characters borne by part of each of a class of manufactured products or its packaging and indicates its order within a set of other products having the same name." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "editor preferred term" + "val" : "version number" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Note: we feel that at the moment we are happy with a general version number, and that we will subclass as needed in the future. For example, see 7. genome sequence version" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "GROUP: IAO" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000112", - "lbl" : "example of usage", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000131", + "lbl" : "serial number", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold." + "val" : "A serial number is an information content entity which is a unique sequence of characters borne by part of manufactured product or its packaging that is assigned to each individual in some class of products, and so can serve as a way to identify an individual product within the class. Serial numbers can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "example of usage" + "val" : "serial number" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Note: during the call there was some confusion between serial number and model number. We agreed that it would be very helpful for all those terms to have example of usages - please add if you have any :-)" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "GROUP: IAO" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000113", - "lbl" : "in branch", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000132", + "lbl" : "lot number", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "An annotation property indicating which module the terms belong to. This is currently experimental and not implemented yet." + "val" : "A lot number is an information content entity which is an identical sequence of character borne by part of manufactured product or its packaging for each instances of a product class in a discrete batch of an item. Lot numbers are usually assigned to each separate production run of an item. Manufacturing as a lot might be due to a variety of reasons, for example, a single process during which many individuals are made from the same portion of source material. Lot numbers can be encoded in a pattern of other information objects, such as bar codes, numerals, or patterns of dots." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "in branch" + "val" : "lot number" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP:OBI" + "val" : "GROUP: IAO" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBI_0000277" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "batch number" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000114", - "lbl" : "has curation status", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000140", + "lbl" : "setting datum", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A settings datum is a datum that denotes some configuration of an instrument." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has curation status" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Bill Bug" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2/3/2009 Feedback from OBI\n\nThis should be a \"setting specification\". There is a question of whether it is information about a realizable or not.\n\nPro other specification are about realizables.\nCons sometimes specifies a quality which is not a realizable." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Alan grouped these in placeholder for the moment. Name by analogy to measurement datum." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000115", - "lbl" : "textual definition", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000141", + "lbl" : "obsolete_digital quality", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Need to rework digital entity. Digital quality was suggested by Barry." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000144", + "lbl" : "conclusion textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions." + "val" : "A textual entity that expresses the results of reasoning about a problem, for instance as typically found towards the end of scientific papers." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "definition" + "val" : "conclusion textual entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "that fucoidan has a small statistically significant effect on AT3 level but no useful clinical effect as in-vivo anticoagulant, a paraphrase of part of the last paragraph of the discussion section of the paper 'Pilot clinical study to evaluate the anticoagulant activity of fucoidan', by Lowenthal et. al.PMID:19696660" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2012-04-05: \nBarry Smith\n\nThe official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.\n\nCan you fix to something like:\n\nA statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.\n\nAlan Ruttenberg\n\nYour proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. \n\nOn the specifics of the proposed definition:\n\nWe don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. \n\nPersonally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. \n\nWe also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with." + "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2012-04-05: \nBarry Smith\n\nThe official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.\n\nCan you fix to something like:\n\nA statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.\n\nAlan Ruttenberg\n\nYour proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. \n\nOn the specifics of the proposed definition:\n\nWe don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. \n\nPersonally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. \n\nWe also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with. " + "val" : "2009/10/23 Alan Ruttenberg: We need to work on the definition still" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "val" : "Person:Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000116", - "lbl" : "editor note", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000178", + "lbl" : "material information bearer", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology." + "val" : "A material entity in which a concretization of an information content entity inheres." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "editor note" + "val" : "material information bearer" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A page of a paperback novel with writing on it. The paper itself is a material information bearer, the pattern of ink is the information carrier." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a brain" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a hard drive" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "val" : "GROUP: IAO" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000117", - "lbl" : "term editor", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000179", + "lbl" : "histogram", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people" + "val" : "A histogram is a report graph which is a statistical description of a\ndistribution in terms of occurrence frequencies of different event classes." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "term editor" + "val" : "histogram" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "PERSON:James Malone" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000118", - "lbl" : "alternative term", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000180", + "lbl" : "heatmap", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A label for a class or property that can be used to refer to the class or property instead of the preferred rdfs:label. Alternative labels should be used to indicate community- or context-specific labels, abbreviations, shorthand forms and the like." + "val" : "A heatmap is a report graph which is a graphical representation of data\nwhere the values taken by a variable(s) are shown as colors in a\ntwo-dimensional map." }, - "comments" : [ "Consider re-defing to: An alternative name for a class or property which can mean the same thing as the preferred name (semantically equivalent, narrow, broad or related)." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "alternative label" + "val" : "heatmap" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "OBO Operations committee" + "val" : "PERSON:Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "PERSON:James Malone" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000119", - "lbl" : "definition source", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000181", + "lbl" : "Venn diagram", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007" + "val" : "A Venn diagram is a report graph showing all hypothetically possible\nlogical relations between a finite collection of sets." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "definition source" + "val" : "Venn diagram" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Daniel Schober" + "val" : "PERSON:Chris Stoeckert" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:James Malone" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Venn_diagram" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000128", - "lbl" : "obsolete_identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0000182", + "lbl" : "obsolete_survival curve", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time." + }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "obsolete_survival curve" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000121" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "_identifier is a container under information content entity for collecting types of terms to indicate a specific instance or clas of what was used or participated in an investigation. Identifiers are borne by a product or its packaging, and can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots.\n\nNote: everybody agreed that identifier is probably a too general term. We however felt that it would be appropriate to group \"identifiying\" terms under some kind of umbrella. We therefore propose to use _identifier for that purpose. As per OBI conventions, the _ prefixing identifier indicates that this is a helper class and shouldn't be considered as final." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Stoeckert" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:James Malone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://www.graphpad.com/www/book/survive.htm" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000129", - "lbl" : "version number", + "id" : "http://purl.obolibrary.org/obo/IAO_0000183", + "lbl" : "dendrogram", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A version number is an information content entity which is a sequence of characters borne by part of each of a class of manufactured products or its packaging and indicates its order within a set of other products having the same name." + "val" : "A dendrogram is a report graph which is a tree diagram\nfrequently used to illustrate the arrangement of the clusters produced by a\nclustering algorithm." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "version number" + "val" : "dendrogram" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Dendrograms are often used in computational biology to\nillustrate the clustering of genes." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Note: we feel that at the moment we are happy with a general version number, and that we will subclass as needed in the future. For example, see 7. genome sequence version" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: IAO" + "val" : "PERSON:James Malone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Dendrogram" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000131", - "lbl" : "serial number", + "id" : "http://purl.obolibrary.org/obo/IAO_0000184", + "lbl" : "scatter plot", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A serial number is an information content entity which is a unique sequence of characters borne by part of manufactured product or its packaging that is assigned to each individual in some class of products, and so can serve as a way to identify an individual product within the class. Serial numbers can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots." + "val" : "A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "serial number" + "val" : "scatter plot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Comparison of gene expression values in two samples can be displayed in a scatter plot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Note: during the call there was some confusion between serial number and model number. We agreed that it would be very helpful for all those terms to have example of usages - please add if you have any :-)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: IAO" + "val" : "PERSON:James Malone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "scattergraph" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Scatterplot" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000132", - "lbl" : "lot number", + "id" : "http://purl.obolibrary.org/obo/IAO_0000185", + "lbl" : "photograph", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A lot number is an information content entity which is an identical sequence of character borne by part of manufactured product or its packaging for each instances of a product class in a discrete batch of an item. Lot numbers are usually assigned to each separate production run of an item. Manufacturing as a lot might be due to a variety of reasons, for example, a single process during which many individuals are made from the same portion of source material. Lot numbers can be encoded in a pattern of other information objects, such as bar codes, numerals, or patterns of dots." + "val" : "A photograph is created by projecting an image onto a photosensitive surface such as a chemically treated plate or film, CCD receptor, etc." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "lot number" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: IAO" + "val" : "PERSON:Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "batch number" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Joanne Luciano" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wiktionary.org/wiki/photograph" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000135", - "lbl" : "obsolete_specifically denotes", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000186", + "lbl" : "photographic print", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "c specifically denotes r =def \nr is a portion of reality\n& c is a particular quality\n& c depends specifically on some independent continuant b \n& b acquired c as the result of the achievement of an objective to enable pointing to r repeatedly. \n\nMarked means there is a changed or additional quality of the bearer - the quality is the information carrier.\n\nCase 1\nMemory trace as mark created when reading some description of some friend. The trace can denote.\n\nCase 2\nPattern of ink arrayed on paper as mark when writing down a friend's name\n\nCase 3\nPattern of magnetic domains on scattered pieces of a hard disk platter as mark when saving a file." + "val" : "A photographic print is a material entity upon which a photograph generically depends." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The process of creation is, for example, writing down on paper the name of a friend by deliberately creating a certain pattern using ink.\n\nHere the ink + paper is the independent continuant and the carrier is the pattern in the ink.\n\nc = pattern in the ink\nb = paper + ink\nr = friend" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "photographic print" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "8/6/2009 Alan Ruttenberg: The suggestions is to deprecate specific and generically denotes in favor of a single denote relationship that corresponds to the generic sense" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" + "val" : "PERSON:Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000136", - "lbl" : "is about", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000225", + "lbl" : "obsolescence reason specification", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A (currently) primitive relation that relates an information artifact to an entity." + "val" : "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This document is about information artifacts and their representations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "obsolescence reason specification" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of \"mentions\" relation. Weaken the is_about relationship to be primitive. \n\nWe will try to build it back up by elaborating the various subproperties that are more precisely defined.\n\nSome currently missing phenomena that should be considered \"about\" are predications - \"The only person who knows the answer is sitting beside me\" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic." + "val" : "The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "person:Alan Ruttenberg" + "val" : "PERSON: Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000140", - "lbl" : "setting datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000300", + "lbl" : "textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A settings datum is a datum that denotes some configuration of an instrument." + "val" : "A textual entity is a part of a manifestation (FRBR sense), a generically dependent continuant whose concretizations are patterns of glyphs intended to be interpreted as words, formulas, etc." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "textual entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Words, sentences, paragraphs, and the written (non-figure) parts of publications are all textual entities" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2/3/2009 Feedback from OBI\n\nThis should be a \"setting specification\". There is a question of whether it is information about a realizable or not.\n\nPro other specification are about realizables.\nCons sometimes specifies a quality which is not a realizable." + "val" : "AR, (IAO call 2009-09-01): a document as a whole is not typically a textual entity, because it has pictures in it - rather there are parts of it that are textual entities. Examples: The title, paragraph 2 sentence 7, etc." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan grouped these in placeholder for the moment. Name by analogy to measurement datum." + "val" : "MC, 2009-09-14 (following IAO call 2009-09-01): textual entities live at the FRBR (http://en.wikipedia.org/wiki/Functional_Requirements_for_Bibliographic_Records) manifestation level. Everything is significant: line break, pdf and html versions of same document are different textual entities." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Lawrence Hunter" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "text" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000141", - "lbl" : "obsolete_digital quality", + "id" : "http://purl.obolibrary.org/obo/IAO_0000301", + "lbl" : "citation", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A textual entity intended to identify a particular publication." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "citation" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Need to rework digital entity. Digital quality was suggested by Barry." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Verspoor, K., Cohen, KB., Hunter, L. Textual characteristics of traditional and Open Access scientific journals are similar, BMC Bioinformatics 2009, 10:183." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Lawrence Hunter" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000142", - "lbl" : "mentions", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000302", + "lbl" : "author identification", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information artifact IA mentions an entity E exactly when it has a component/part that denotes E" + "val" : "A textual entity intended to identify a particular author" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "7/6/2009 Alan Ruttenberg. P4 RC1 munges our GCI so remove it for now: mentions some entity equivalentTo has_part some ('generically denotes' some entity)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "author identification" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "7/6/2009 Alan Ruttenberg: Add this relation following conversation with Jonathan Rees that N&S GCI for is_about was too strong. Really it was simply sufficient. To effect this change we introduce this relation, which is subproperty of is_about, and have previous GCI use this relation \"mentions\" in it's (logical) definition" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "L. Hunter" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jonathan Rees" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person: Alan Ruttenberg" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000143", - "lbl" : "mentioned by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000303", + "lbl" : "institutional identification", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Inverse of the relation 'mentions'" + "val" : "A textual entity intended to identify a particular institution" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "http://orcid.org/0000-0002-8844-9165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "institutional identification" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/250" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "University of Colorado Denver School of Medicine" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2022-01-28T07:20:08Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000144", - "lbl" : "conclusion textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000304", + "lbl" : "caption", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses the results of reasoning about a problem, for instance as typically found towards the end of scientific papers." + "val" : "A textual entity that describes a figure" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "conclusion textual entity" + "val" : "caption" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "that fucoidan has a small statistically significant effect on AT3 level but no useful clinical effect as in-vivo anticoagulant, a paraphrase of part of the last paragraph of the discussion section of the paper 'Pilot clinical study to evaluate the anticoagulant activity of fucoidan', by Lowenthal et. al.PMID:19696660" + "val" : "Figure 1: A system diagram describing the modules of the Hanalyzer. Reading methods (green) take external sources of knowledge (blue) and extract information from them, either by parsing structured data or biomedical language processing to extract information from unstructured data. Reading modules are responsible for tracking the provenance of all knowledge. Reasoning methods (yellow) enrich the knowledge that results from reading by, for example, noting two genes that are annotated to the same ontology term or database entry. All knowledge sources, read or reasoned, are assigned a reliability score, and all are combined using that score into a knowledge network (orange) that represents the integration of all sorts of relationship between a pair of genes and a combined reliability score. A data network (also orange) is created from experimental results to be analyzed. The reporting modules (pink) integrate the data and knowledge networks, producing visualizations that can be queried with the associated drill-down tool." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/10/23 Alan Ruttenberg: We need to work on the definition still" + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000178", - "lbl" : "material information bearer", + "id" : "http://purl.obolibrary.org/obo/IAO_0000305", + "lbl" : "document title", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A material entity in which a concretization of an information content entity inheres." + "val" : "A textual entity that names a document" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "material information bearer" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A page of a paperback novel with writing on it. The paper itself is a material information bearer, the pattern of ink is the information carrier." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a brain" + "val" : "document title" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a hard drive" + "val" : "Textual characteristics of traditional and Open Access scientific journals are similar" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: IAO" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000179", - "lbl" : "histogram", + "id" : "http://purl.obolibrary.org/obo/IAO_0000306", + "lbl" : "table", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A histogram is a report graph which is a statistical description of a\ndistribution in terms of occurrence frequencies of different event classes." + "val" : "A textual entity that contains a two-dimensional arrangement of texts repeated at regular intervals across a spatial range, such that the spatial relationships among the constituent texts expresses propositions" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "histogram" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "table" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "| T F\n--+-----\nT | T F\nF | F F" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000180", - "lbl" : "heatmap", + "id" : "http://purl.obolibrary.org/obo/IAO_0000307", + "lbl" : "table of abbreviations", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A heatmap is a report graph which is a graphical representation of data\nwhere the values taken by a variable(s) are shown as colors in a\ntwo-dimensional map." + "val" : "A table where the constituent texts are abbreviations and their expansions" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "heatmap" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "table of abbreviations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "IAO information artifact ontology\nOBI ontology of biomedical investiations\nGO gene ontology" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000181", - "lbl" : "Venn diagram", + "id" : "http://purl.obolibrary.org/obo/IAO_0000308", + "lbl" : "figure", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A Venn diagram is a report graph showing all hypothetically possible\nlogical relations between a finite collection of sets." + "val" : "An information content entity consisting of a two dimensional arrangement of information content entities such that the arrangement itself is about something." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "Venn diagram" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "figure" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Any picture, diagram or table" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Venn_diagram" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000182", - "lbl" : "obsolete_survival curve", + "id" : "http://purl.obolibrary.org/obo/IAO_0000309", + "lbl" : "diagram", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time." + "val" : "A figure that expresses one or more propositions" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obsolete_survival curve" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "diagram" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A molecular structure ribbon cartoon showing helices, turns and sheets and their relations to each other in space." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://www.graphpad.com/www/book/survive.htm" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "val" : "PERSON: Lawrence Hunter" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000183", - "lbl" : "dendrogram", + "id" : "http://purl.obolibrary.org/obo/IAO_0000310", + "lbl" : "document", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A dendrogram is a report graph which is a tree diagram\nfrequently used to illustrate the arrangement of the clusters produced by a\nclustering algorithm." + "val" : "A collection of information content entities intended to be understood together as a whole" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "dendrogram" + "val" : "document" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Dendrograms are often used in computational biology to\nillustrate the clustering of genes." + "val" : "A journal article, patent application, laboratory notebook, or a book" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Dendrogram" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000184", - "lbl" : "scatter plot", + "id" : "http://purl.obolibrary.org/obo/IAO_0000311", + "lbl" : "publication", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis." + "val" : "A document that is the output of a publishing process." }, + "comments" : [ "Revisit the term in Octorber 2020. Improve the defintion." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "scatter plot" + "val" : "publication" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Comparison of gene expression values in two samples can be displayed in a scatter plot" + "val" : "journal article, newspaper story, book, etc." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "val" : "PERSON: Chris Stoeckert" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:James Malone" + "val" : "PERSON: Jie Zheng" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Lawrence Hunter" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "scattergraph" + "val" : "published document" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Scatterplot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/232" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000185", - "lbl" : "photograph", + "id" : "http://purl.obolibrary.org/obo/IAO_0000312", + "lbl" : "publication about an investigation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A photograph is created by projecting an image onto a photosensitive surface such as a chemically treated plate or film, CCD receptor, etc." + "val" : "A publication that is about an investigation" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "publication about an investigation" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Most scientific journal articles" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Joanne Luciano" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Lawrence Hunter" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wiktionary.org/wiki/photograph" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "scientific publication" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000186", - "lbl" : "photographic print", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000313", + "lbl" : "patent", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A photographic print is a material entity upon which a photograph generically depends." + "val" : "A document that has been accepted by a patent authority" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "photographic print" + "val" : "patent" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "US Patent 6,449,603" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000219", - "lbl" : "denotes", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000314", + "lbl" : "document part", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically" + "val" : "An information content entity that is part of a document." }, - "comments" : [ "" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "document part" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A person's name denotes the person. A variable name in a computer program denotes some piece of memory. Lexically equivalent strings can denote different things, for instance \"Alan\" can denote different people. In each case of use, there is a case of the denotation relation obtaining, between \"Alan\" and the person that is being named." + "val" : "An abstract, introduction, method or results section." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009-11-10 Alan Ruttenberg. Old definition said the following to emphasize the generic nature of this relation. We no longer have 'specifically denotes', which would have been primitive, so make this relation primitive.\ng denotes r =def \nr is a portion of reality\nthere is some c that is a concretization of g \nevery c that is a concretization of g specifically denotes r" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Conversations with Barry Smith, Werner Ceusters, Bjoern Peters, Michel Dumontier, Melanie Courtot, James Malone, Bill Hogan" + "val" : "PERSON: Lawrence Hunter" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000220", - "lbl" : "obsolete_materially denotes", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000221", - "lbl" : "is quality measurement of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000315", + "lbl" : "abstract", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "m is a quality measurement of q at t. When q is a quality, there is a measurement process p that has specified output m, a measurement datum, that is about q" + "val" : "A summary of the entire document that is substantially smaller than the document it summarizes. It is about the document it summarizes." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "8/6/2009 Alan Ruttenberg: The strategy is to be rather specific with this relationship. There are other kinds of measurements that are not of qualities, such as those that measure time. We will add these as separate properties for the moment and see about generalizing later" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "abstract" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "From the second IAO workshop [Alan Ruttenberg 8/6/2009: not completely current, though bringing in comparison is probably important]\n\nThis one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it \"measuring\" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail.\n\nWerner suggests a solution based on \"Magnitudes\" a proposal for which we are awaiting details.\n--\nFrom the second IAO workshop, various comments, [commented on by Alan Ruttenberg 8/6/2009]\n\nunit of measure is a quality, e.g. the length of a ruler.\n\n[We decided to hedge on what units of measure are, instead talking about measurement unit labels, which are the information content entities that are about whatever measurement units are. For IAO we need that information entity in any case. See the term measurement unit label]\n\n[Some struggling with the various subflavors of is_about. We subsequently removed the relation represents, and describes until and only when we have a better theory]\n\na represents b means either a denotes b or a describes\n\ndescribe:\na describes b means a is about b and a allows an inference of at least one quality of b\n\nWe have had a long discussion about denotes versus describes." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The profusion of high-throughput instruments and the explosion of new results in the scientific literature, particularly in molecular biomedicine, is both a blessing and a curse to the bench researcher. Even knowledgeable and experienced scientists can benefit from computational tools that help navigate this vast and rapidly evolving terrain. In this paper, we describe a novel computational approach to this challenge, a knowledge-based system that combines reading, reasoning and reporting methods to facilitate analysis of experimental data. Reading methods extract information from external resources, either by parsing structured data or biomedical language processing to extract information from unstructured data, and track knowledge provenance. Reasoning methods enrich the knowledge that results from reading by, for example, noting two genes that are annotated to the same ontology term or database entry. Reasoning is also used to combine all sources into a knowledge network that represents the integration of all sorts of relationships between a pair of genes, and to calculate a combined reliability score. Reporting methods combine the knowledge network with a congruent network constructed from experimental data and visualize the combined network in a tool that facilitates the knowledge-based analysis of that data." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "From the second IAO workshop: An attempt at tieing the quality to the measurement datum more carefully.\n\na is a magnitude means a is a determinate quality particular inhering in some bearer b existing at a time t that can be represented/denoted by an information content entity e that has parts denoting a unit of measure, a number, and b. The unit of measure is an instance of the determinable quality." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "From the second meeting on IAO:\n\nAn attempt at defining assay using Barry's \"reliability\" wording\n\nassay:\nprocess and has_input some material entity\nand has_output some information content entity \nand which is such that instances of this process type reliably generate \noutputs that describes the input." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Lawrence Hunter" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it \"measuring\" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. 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This is also a document part (subsumption there should be inferred)." + "val" : "A planned process in which a CRID registry associates an information content entity with a CRID symbol" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "table of figures" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Articles in Pubmed are reviewed by curators who add MESH terms to the Pubmed records in order to categorize them better and improve the ability to search for them. 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Term was deemed not necessary - no use case for now." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Lawrence Hunter" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000330", - "lbl" : "copyright section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000577", + "lbl" : "centrally registered identifier symbol", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document part that describes legal restrictions on making or distributing copies of the document" + "val" : "A symbol that is part of a CRID and that is sufficient to look up a record from the CRID's registry." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "copyright section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This work is licensed under a Creative Commons Attribution-Share Alike 3.0 United States License." + "val" : "The sentence \"The article has Pubmed ID 12345.\" contains a CRID that has two parts: one part is the CRID symbol, which is '12345'; the other part denotes the CRID registry, which is Pubmed." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Lawrence Hunter" + "val" : "PERSON: Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "CRID symbol" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Original proposal from Bjoern, discussions at IAO calls" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000400", - "lbl" : "cartesian spatial coordinate datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000578", + "lbl" : "centrally registered identifier", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A cartesian spatial coordinate datum is a representation of a point in a spatial region, in which equal changes in the magnitude of a coordinate value denote length qualities with the same magnitude" + "val" : "An information content entity that consists of a CRID symbol and additional information about the CRID registry to which it belongs." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The sentence \"The article has Pubmed ID 12345.\" contains a CRID that has two parts: one part is the CRID symbol, which is '12345'; the other part denotes the CRID registry, which is Pubmed." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009-08-18 Alan Ruttenberg - question to BFO list about whether the BFO sense of the lower dimensional regions is that they are always part of actual space (the three dimensional sort) http://groups.google.com/group/bfo-discuss/browse_thread/thread/9d04e717e39fb617" + "val" : "2014-05-05: In defining this term we take no position on what the CRID denotes. In particular do not assume it denotes a *record* in the CRID registry (since the registry might not have 'records')." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Alan, IAO call 20101124: potentially the CRID denotes the instance it was associated with during creation." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Note, IAO call 20101124: URIs are not always CRID, as not centrally registered. We acknowledge that CRID is a subset of a larger identifier class, but this subset fulfills our current needs. OBI PURLs are CRID as they are registered with OCLC. UPCs (Universal Product Codes from AC Nielsen)are not CRID as they are not centrally registered." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "AR notes: We need to discuss whether it should include site." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Hogan" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://groups.google.com/group/bfo-discuss/browse_thread/thread/9d04e717e39fb617" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "CRID" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Original proposal from Bjoern, discussions at IAO calls" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000401", - "lbl" : "one dimensional cartesian spatial coordinate datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000579", + "lbl" : "centrally registered identifier registry", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A cartesion spatial coordinate datum that uses one value to specify a position along a one dimensional spatial region" + "val" : "A code set of CRID records, each consisting of a CRID symbol and additional information which was recorded in the code set through an assigning a centrally registered identifier process." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "PubMed is a CRID registry. It has a code set of PubMed identifiers associated with journal articles. " + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "Justin Whorton" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "CRID registry" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Original proposal from Bjoern, discussions at IAO calls" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000402", - "lbl" : "two dimensional cartesian spatial coordinate datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000580", + "lbl" : "looking up a centrally registered identifier", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A cartesion spatial coordinate datum that uses two values to specify a position within a two dimensional spatial region" + "val" : "A planned process in which a request to a CRID registry is made to return the information associated with a CRID symbol" }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Going to the PubMed website and entering a PubMed ID in order to retrieve the Pubmed information associated with that ID. " + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "looking up a CRID" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000403", - "lbl" : "three dimensional cartesian spatial coordinate datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000582", + "lbl" : "time stamped measurement datum", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A cartesion spatial coordinate datum that uses three values to specify a position within a three dimensional spatial region" - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000123" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000404", - "lbl" : "has x coordinate value", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000405", - "lbl" : "has z coordinate value", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000406", - "lbl" : "has y coordinate value", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000407", - "lbl" : "has coordinate unit label", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "relating a cartesian spatial coordinate datum to a unit label that together with the values represent a point" ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000408", - "lbl" : "length measurement datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000584", + "lbl" : "time sampled measurement data set", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A scalar measurement datum that is the result of measurement of length quality" + "val" : "A data set that is an aggregate of data recording some measurement at a number of time points. The time series data set is an ordered list of pairs of time measurement data and the corresponding measurement data acquired at that time." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "pmid:20604925 - time-lapse live cell microscopy" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "experimental time series" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000411", - "lbl" : "is denotator type", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000590", + "lbl" : "written name", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates an class defined in an ontology, to the type of it's denotator" + "val" : "A textual entity that denotes a particular in reality." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is denotator type" + "val" : "written name" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "In OWL 2 add AnnotationPropertyRange('is denotator type' 'denotator type')" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "\"Bill Clinton\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "\"The Eiffel Tower\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "\"United States of America\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Bill Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/114" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "The qualifier \"written\" is to set it apart from spoken names. Also, note the restrictions to particulars. We are not naming universals. We could however, be naming, attributive collections which are particulars, so \"All people located in the boundaries of the city of Little Rock, AR on June 18, 2011 at 9:50a CDT\" would be a name." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000412", - "lbl" : "imported from", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000591", + "lbl" : "software method", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "For external terms/classes, the ontology from which the term was imported" + "val" : "A software method (also called subroutine, subprogram, procedure, method, function, or routine) is software designed to execute a specific task." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "imported from" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "PERSON: Melanie Courtot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Michel Dumontier" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI:" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000413", - "lbl" : "is duration of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000592", + "lbl" : "software module", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "relates a process to a time-measurement-datum that represents the duration of the process" + "val" : "A software module is software composed of a collection of software methods." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Melanei Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Michel Dumontier" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000414", - "lbl" : "mass measurement datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000593", + "lbl" : "software library", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A scalar measurement datum that is the result of measurement of mass quality" + "val" : "A software library is software composed of a collection of software modules and/or software methods in a form that can be statically or dynamically linked to some software application." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Michel Dumontier" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000415", - "lbl" : "hypothesis textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000594", + "lbl" : "software application", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses an assertion that is intended to be tested." + "val" : "A software application is software that can be directly executed by some processing unit." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "hypothesis textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "that fucoidan has a small statistically significant effect on AT3 level but no useful clinical effect as in-vivo anticoagulant, a paraphrase of part of the last paragraph of the discussion section of the paper 'Pilot clinical study to evaluate the anticoagulant activity of fucoidan', by Lowenthal et. al.PMID:19696660" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Michel Dumontier" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000416", - "lbl" : "time measurement datum", + "id" : "http://purl.obolibrary.org/obo/IAO_0000595", + "lbl" : "software script", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A scalar measurement datum that is the result of measuring a temporal interval" + "val" : "A software script is software whose instructions can be executed using a software interpreter." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Michel Dumontier" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000417", - "lbl" : "is quality measured as", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000605", + "lbl" : "abbreviation textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "inverse of the relation of is quality measurement of" + "val" : "A textual entity listing abbreviations and their expansions that are used in a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "abbreviation textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/):\n\nBAC: Bacterial artificial chromosome; CR: Calretinin; GFAP: Glial fibrillary acidic protein; MAP: Microtubule-associated protein; MRI: Magnetic resonance imaging; NSC: Neural stem cell; PDA: Patent ductus arteriosus; PMG: Polymicrogyria; PNH: Periventricular nodular heterotopia; VSD: Ventricular septal defect." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000418", - "lbl" : "is quality specification of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000606", + "lbl" : "abbreviations section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A relation between a data item and a quality of a material entity where the material entity is the specified output of a material transformation which achieves an objective specification that indicates the intended value of the specified quality." + "val" : "A part of a document where abbreviations and their long-forms used within the document are listed." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "abbreviations section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'abbreviations' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Bjoern Peters" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviation and acronyms" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviation list" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviations and acronyms" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviations list" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "abbreviations used" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "definitions for abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "list of abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "list of abbreviations used" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "non-standard abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "nonstandard abbreviations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "nonstandard abbreviations and acronyms" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000419", - "lbl" : "quality is specified as", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000607", + "lbl" : "author information section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "inverse of the relation of is quality specification of" + "val" : "A part of a document about the authors that provides biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "author information section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'author information' in a typical scientific journal article, e.g. in Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "author information" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "authors’ information" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "biographies" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "contributor information" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000422", - "lbl" : "postal address", + "id" : "http://purl.obolibrary.org/obo/IAO_0000608", + "lbl" : "author information textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that is used as directive to deliver something to a person, or organization" + "val" : "A textual entity expression information about an author of a document. This information may include biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "author information textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2010-05-24 Alan Ruttenberg. Use label for the string representation. See issue https://github.com/information-artifact-ontology/IAO/issues/59" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/):\n\nIT [the author] is the lead paediatrician for ADHD services in East Hertfordshire, UK, where she runs a weekly joint ADHD clinic with the Child and Adolescent psychiatrist and works within an ADHD specialist team. IT also sees children with other neurodisability issues who may have comorbid ADHD, where the presentation may be more complex and challenging to manage. IT has vast experience in managing children with complex ADHD. She has 18 years of experience in paediatrics and also has extensive experience in the use of psychopharmacologic agents in managing children with ADHD." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000424", - "lbl" : "expand expression to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000609", + "lbl" : "author summary section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A macro expansion tag applied to an object property (or possibly a data property) which can be used by a macro-expansion engine to generate more complex expressions from simpler ones" + "val" : "A part of a document, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "expand expression to" + "val" : "author summary section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "ObjectProperty: RO_0002104\nLabel: has plasma membrane part\nAnnotations: IAO_0000424 \"http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"\n" + "val" : "The section labelled 'synopsis' in a typical scientific journal article, e.g. in Pendse et al. BMC Genomics. 2013; 14: 136. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3608171/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "author summary" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "summary" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "synopsis" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000425", - "lbl" : "expand assertion to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000610", + "lbl" : "author summary textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A macro expansion tag applied to an annotation property which can be expanded into a more detailed axiom." + "val" : "A textual entity, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers, e.g as described in the article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "expand assertion to" + "val" : "author summary textual entity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "ObjectProperty: RO???\nLabel: spatially disjoint from\nAnnotations: expand_assertion_to \"DisjointClasses: (http://purl.obolibrary.org/obo/BFO_0000051 some ?X) (http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"\n" + "val" : "From Pendse et al. BMC Genomics. 2013; 14: 136. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3608171/):\n\n\nThe search for genetic risk factors for common human diseases often relies on the use of linkage and association studies to establish correlation between genomic markers and disease risk. These studies require additional functional evaluation of candidate genes, including their possible interaction with diet and environment. The number of candidate genes is typically large and the development of appropriate genetic tools in mammalian systems is slow. By contrast, large-scale genetic screens, using widely available genetic tools, are routinely conducted in the fruit fly Drosophila melanogaster. In this study, we used Drosophila to screen candidate genes identified in human genome-wide scans as associated with risk of metabolic abnormalities such as type 2 diabetes. We show that a number of human candidate genes have fly orthologs that play an important role in Drosophila tolerance to high dietary sucrose. We further explored some of the specific metabolic abnormalities that can result when these genes’ activities are reduced in flies, focusing on a gene we call dHHEX (CG7056), the fly ortholog of human HHEX." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000426", - "lbl" : "first order logic expression", - "type" : "PROPERTY", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "first order logic expression" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000427", - "lbl" : "antisymmetric property", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000611", + "lbl" : "availability section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Use boolean value xsd:true to indicate that the property is an antisymmetric property" + "val" : "A part of a document about a resource described in the document, e.g. software, that describes where and/or how that resource can be obtained." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "antisymmetric property" + "val" : "availability section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "part_of antisymmetric property xsd:true" + "val" : "The section labelled 'availability and requirements' in a typical scientific journal article, e.g. Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/)." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "availability" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "availability of data" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data archiving" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data availability" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data availability statement" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data sharing statement" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000429", - "lbl" : "email address", + "id" : "http://purl.obolibrary.org/obo/IAO_0000612", + "lbl" : "availability textual entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A textual entity expressing the location of a resource, e.g. software, or the manner in which a resource can be obtained." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "email address" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "availability textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan Ruttenberg 1/3/2012 - Provisional id, see issue at https://github.com/information-artifact-ontology/IAO/issues/130&thanks=130&ts=1325636583" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/):\n\nProject home page:http://krux.googlecode.com" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Chris Stoeckart" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000442", - "lbl" : "author role", + "id" : "http://purl.obolibrary.org/obo/IAO_0000613", + "lbl" : "case report section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role inhering in a person or organization that is realized when the bearer participates in the work which is the basis of the document, in the writing of the document, and signs it with their name." + "val" : "A part of a document about the medical history of a specific patient as it relates to the topic of the document." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author role" + "val" : "case report section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'case report' in a typical scientific journal article, e.g. in Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "case presentation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "case report" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000443", - "lbl" : "data item extraction from journal article", + "id" : "http://purl.obolibrary.org/obo/IAO_0000614", + "lbl" : "case report textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which journal articles are read or processed and data items are extracted, typically for further analysis or indexing" + "val" : "A textual entity that expresses a detailed account of a portion of the medical history for a specific patient." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "case report textual entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Excerpt from Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/):\n\nThe patient is a 50-year-old man. His medical history was not contributory. At the age of 37 years, he complained of persistent fatigue and dyspnoea even for modest efforts and oedema of lower limbs. The patient was examined at the department of internal medicine of the local hospital, and hospitalised with a diagnosis of dilated cardiomyopathy probably consequence of a myocarditis process. Soon after he was transferred to the cardiologic department of the regional hospital, and pharmacologically treated for heart failure and pulmonary hypertension." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000444", - "lbl" : "publishing process", + "id" : "http://purl.obolibrary.org/obo/IAO_0000615", + "lbl" : "conclusion section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process of making information, such as literature, music, and software etc., available to the public for sale or for free." + "val" : "A part of a document used to summarize the findings discussed in the document. The conclusion section is typically found near the end of a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "conclusion section" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'conclusion' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person: Jie Zheng" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/wiki/Publishing" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "concluding remarks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/232" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "conclusion" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "VEuPathDB" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "conclusions" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "findings" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "summary" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000445", - "lbl" : "document in preparation for publication", + "id" : "http://purl.obolibrary.org/obo/IAO_0000616", + "lbl" : "conflict of interest section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document that is in preparation for submission to be published." + "val" : "A part of a document used to declare any competing interests regarding the authors and/or funding organization for the work described in the document." }, "basicPropertyValues" : [ { - 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"pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Recording the current temperature in a laboratory notebook. 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[Taken from 'Effects of obstructive sleep apnoea risk on postoperative respiratory complications: protocol for a hospital-based registry study' Shin et al. 2016 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4735131/)] " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Bjoern Peters" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "wikipedia http://en.wikipedia.org/wiki/Documenting" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000573", - "lbl" : "line graph", + "id" : "http://purl.obolibrary.org/obo/IAO_0000618", + "lbl" : "consent section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A line graph is a type of graph created by connecting a series of data\npoints together with a line." + "val" : "A part of a document about the consent process that was used to enroll patients in a study." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "line graph" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + "val" : "consent section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'consent' in a typical scientific journal article, e.g. Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "line chart" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBI" + "val" : "consent" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Line_chart" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000574", - "lbl" : "assigning a centrally registered identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0000619", + "lbl" : "consent textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which a new CRID is created, associated with an entity, and stored in the CRID registry thereby registering it as being associated with some entity" + "val" : "A textual entity that documents the consenting process used to enroll patients in a study." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A new pubmed ID being created for a journal article, and the associated pubmed record containing information to the journal article. A license plate number registered at the DMV to be belonging to a specific vehicle and owner. Placing a barcode on a product and entering information in a database that this barcode is assigned." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "consent textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2014-05-05: It is the CRID registry that assigns CRIDs, not the users of the registry." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/):\n\nWritten informed consent was obtained from the patient’s parents for publication of this Case report and any accompanying images. A copy of the written consent is available for review by the Editor-in chief of this journal." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Melanie Courtot" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "assigning a CRID" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000575", - "lbl" : "associating information with a centrally registered identifier in its registry", + "id" : "http://purl.obolibrary.org/obo/IAO_0000620", + "lbl" : "ethical approval section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which a CRID registry associates an information content entity with a CRID symbol" + "val" : "A part of a document about the governance body responsible for approving the work discussed in a document on an ethical basis." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Articles in Pubmed are reviewed by curators who add MESH terms to the Pubmed records in order to categorize them better and improve the ability to search for them. " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ethical approval section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'ethical approval' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "associating information with a CRID in the CRID registry" + "val" : "ethical approval" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ethical requirements" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ethics" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ethics statement" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000576", - "lbl" : "obsolete_establishing a CRID registry", + "id" : "http://purl.obolibrary.org/obo/IAO_0000621", + "lbl" : "ethical approval textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a planned process with the objective to establish a system that allows to refer to specific entities of a certain kind and store information about them, by establishing a CRID registry and plan specifications for the process of 1) assigning a CRID and 2) looking up a CRID." + "val" : "A textual entity that documents the ethical approval of some study design." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "MC, 20101124: deprecated following discussion at IAO call 20101124. 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In particular do not assume it denotes a *record* in the CRID registry (since the registry might not have 'records')." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "financial support" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan, IAO call 20101124: potentially the CRID denotes the instance it was associated with during creation." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Note, IAO call 20101124: URIs are not always CRID, as not centrally registered. We acknowledge that CRID is a subset of a larger identifier class, but this subset fulfills our current needs. OBI PURLs are CRID as they are registered with OCLC. UPCs (Universal Product Codes from AC Nielsen)are not CRID as they are not centrally registered." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding information" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding sources" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding statement" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "funding/support" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "grants" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "CRID" + "val" : "role of the funding source" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Original proposal from Bjoern, discussions at IAO calls" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "source of funding" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "sources of funding" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "study funding" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000579", - "lbl" : "centrally registered identifier registry", + "id" : "http://purl.obolibrary.org/obo/IAO_0000624", + "lbl" : "funding source declaration textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A code set of CRID records, each consisting of a CRID symbol and additional information which was recorded in the code set through an assigning a centrally registered identifier process." + "val" : "A textual entity documenting the source of funding that supported some study." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "PubMed is a CRID registry. It has a code set of PubMed identifiers associated with journal articles. " - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "funding souce declaration textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Stephan et al. Accid Anal Prev. 2011 May; 43(3): 1062–1067. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3062852/):\n\nThis study was supported by the International Collaborative Research Grants Scheme with joint grants from the Wellcome Trust UK (GR071587MA) and the Australian NHMRC (268055). The funding sources played no role in study design, data collection, analysis or interpretation, writing the report, or the decision to submit the paper for publication." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "CRID registry" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Original proposal from Bjoern, discussions at IAO calls" + "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000580", - "lbl" : "looking up a centrally registered identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0000625", + "lbl" : "future directions section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which a request to a CRID registry is made to return the information associated with a CRID symbol" + "val" : "A part of a document detailing extensions of the described work that may be implemented at some future point in time." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Going to the PubMed website and entering a PubMed ID in order to retrieve the Pubmed information associated with that ID. " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "future directions section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'future directions' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future challenges" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future considerations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future developments" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "looking up a CRID" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000581", - "lbl" : "has time stamp", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "relates a time stamped measurement datum to the time measurement datum that denotes the time when the measurement was taken" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "val" : "future directions" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000582", - "lbl" : "time stamped measurement datum", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000583", - "lbl" : "has measurement datum", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "relates a time stamped measurement datum to the measurement datum that was measured" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future outlook" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future perspectives" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future plans" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future prospects" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future research" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future research directions" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future studies" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "future work" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "outlook" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000584", - "lbl" : "time sampled measurement data set", + "id" : "http://purl.obolibrary.org/obo/IAO_0000626", + "lbl" : "future directions textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data set that is an aggregate of data recording some measurement at a number of time points. The time series data set is an ordered list of pairs of time measurement data and the corresponding measurement data acquired at that time." + "val" : "A textual entity expressing ideas regarding future work relevant to work described in a document that could be done." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "pmid:20604925 - time-lapse live cell microscopy" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "future directions textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Excerpt from Wang and Li. Acta Pharmacol Sin. 2016 Jan; 37(1): 25–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4722976/):\n\nIn the future, several questions will need to be resolved regarding the physiological assembly of KCNQ channels and their functional implications in complex neural circuits. First, we still lack sufficiently selective inhibitors and activators among the KCNQ family members." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "experimental time series" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000589", - "lbl" : "OBO foundry unique label", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000627", + "lbl" : "genome announcement section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "An alternative name for a class or property which is unique across the OBO Foundry." + "val" : "A document part announcing the publication of a novel draft genome sequence." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "OBO foundry unique label" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools ." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "genome announcement section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Bjoern Peters" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'genome announcement' in a typical scientific journal article, e.g. in Kim et al. J Bacteriol. 2011 Oct; 193(19): 5537. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3187466/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Chris Mungall" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "genome announcement" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP:OBO Foundry " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000590", - "lbl" : "written name", + "id" : "http://purl.obolibrary.org/obo/IAO_0000628", + "lbl" : "genome announcement textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that denotes a particular in reality." + "val" : "A textual entity that describes the generation and public release of a novel, draft genome sequence." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "written name" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "\"Bill Clinton\"" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "\"The Eiffel Tower\"" + "val" : "genome announcement textual entity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "\"United States of America\"" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "val" : "Excerpt from Kim et al. J Bacteriol. 2011 Oct; 193(19): 5537. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3187466/):\n\nHere we report the genome sequence of Lactobacillus malefermentans KCTC 3548, which we obtained using a whole-genome shotgun strategy (4) with Roche 454 GS (FLX Titanium) pyrosequencing (257,559 reads totaling ∼89.8 Mb; ∼45-fold coverage of the genome) at the Genome Resource Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB)." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/114" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "The qualifier \"written\" is to set it apart from spoken names. Also, note the restrictions to particulars. We are not naming universals. We could however, be naming, attributive collections which are particulars, so \"All people located in the boundaries of the city of Little Rock, AR on June 18, 2011 at 9:50a CDT\" would be a name." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000591", - "lbl" : "software method", + "id" : "http://purl.obolibrary.org/obo/IAO_0000629", + "lbl" : "keyword textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software method (also called subroutine, subprogram, procedure, method, function, or routine) is software designed to execute a specific task." + "val" : "A textual entity listing keywords indicating the major theme(s) of a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "keyword textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From: Fu and Lin. Identification of gene-oriented exon orthology between human and mouse. BMC Genomics. 2012; 13(Suppl 1): S10. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3303729/):\n\nExon orthology; alternative splicing; exon duplication; intron-exon structure." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000592", - "lbl" : "software module", + "id" : "http://purl.obolibrary.org/obo/IAO_0000630", + "lbl" : "keywords section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software module is software composed of a collection of software methods." + "val" : "A part of a document where keywords selected by the author to categorize the major theme(s) of a document are listed." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "keywords section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanei Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'keywords' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "keywords" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000593", - "lbl" : "software library", + "id" : "http://purl.obolibrary.org/obo/IAO_0000631", + "lbl" : "study limitations section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software library is software composed of a collection of software modules and/or software methods in a form that can be statically or dynamically linked to some software application." + "val" : "A part of a document about biases or short comings related to the study design and execution." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "study limitations section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'limitations' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "limitations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "study limitations" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "val" : "Author guidelines published by The Society for Academic Emergency Medicine. (http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1553-2712/homepage/ForAuthors.html)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000594", - "lbl" : "software application", + "id" : "http://purl.obolibrary.org/obo/IAO_0000632", + "lbl" : "study limitations textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software application is software that can be directly executed by some processing unit." + "val" : "A textual entity addressing a shortcoming or bias of a study design or execution." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "study limitations textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Excerpt from the Limitations section of Fermann et al 2015, Acad Emerg Med. 2015 Mar; 22(3): 299–307 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4405051/). \n\nOwing to the nature of a post hoc study, any significant values must be interpreted with caution. In the current analysis, no multiple testing was conducted and p-values remain unadjusted. Moreover, a selection bias arising from the randomized open-label design of the original EINSTEIN PE study cannot be ruled out." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "val" : "Author guidelines published by The Society for Academic Emergency Medicine. (http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1553-2712/homepage/ForAuthors.html)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000595", - "lbl" : "software script", + "id" : "http://purl.obolibrary.org/obo/IAO_0000633", + "lbl" : "materials section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A software script is software whose instructions can be executed using a software interpreter." + "val" : "A part of a document about the materials required to reproduce the content of the document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "materials section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'materials' in a typical scientific journal article, e.g. Nguyen et al. BMC Bioinformatics. 2010; 11: 279. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2889936/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Michel Dumontier" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/80" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "materials" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000596", - "lbl" : "has ID digit count", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000634", + "lbl" : "notes section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates an ontology used to record id policy to the number of digits in the URI. The URI is: the 'has ID prefix\" annotation property value concatenated with an integer in the id range (left padded with \"0\"s to make this many digits)" + "val" : "A part of a document containing typically short notes about the document itself and/or the authors. Often the notes section contains subsections related to funding, competing interests, ethical approval, etc." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ID digit count" + "val" : "notes section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + "val" : "The section labelled 'notes' in a typical scientific journal article, e.g. McLean et al. Br J Gen Pract. 2014 Jul; 64(624): e440–e447 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4073730/):" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000597", - "lbl" : "has ID range allocated to", - "type" : "PROPERTY", + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "notes" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000635", + "lbl" : "patients section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates a datatype that encodes a range of integers to the name of the person or organization who can use those ids constructed in that range to define new terms" + "val" : "A part of a document about the patients that participated in a study." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ID range allocated" + "val" : "patients section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Datatype: idrange:1\nAnnotations: 'has ID range allocated to': \"Chris Mungall\"\nEquivalentTo: xsd:integer[> 2151 , <= 2300]\n" + "val" : "The section labelled 'patients' in a typical scientific journal article, e.g. in Citak et al. Acta Orthop. 2013 Jun; 84(3): 326–327. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715825/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000598", - "lbl" : "has ID policy for", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000636", + "lbl" : "patients textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relating an ontology used to record id policy to the ontology namespace whose policy it manages" + "val" : "A textual entity expressing information regarding the patients used in a study." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ID policy for" + "val" : "patients textual entity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + "val" : "Excerpt from Citak et al. Acta Orthop. 2013 Jun; 84(3): 326–327. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715825/):\n\nBetween January 1996 and February 2012, we treated 4 patients with interprosthetic femoral fractures (3 of them women) (Figure 2) using a custom-made interposition device (Waldemar Link GmbH, Hamburg, Germany) (Figure 1). Mean age was 74 (59–86) years. The fractures occurred mean 18 (13–28) years after primary THA and mean 14 (10–17) years after primary TKA. At the latest follow-up, after mean 8 (0.5–16) years, revision surgery with a total femur replacement was required in 1 case due to aseptic loosening. No other complications requiring revision surgery occurred." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000599", - "lbl" : "has ID prefix", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000637", + "lbl" : "pre-publication history section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates an ontology used to record id policy to a prefix concatenated with an integer in the id range (left padded with \"0\"s to make this many digits) to construct an ID for a term being created." + "val" : "A part of the document about the publication history of a document. This section typically details dates of document submission to a journal and dates of any re-submissions as well as reviewer comments and responses to reviewers by the authors." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ID prefix" + "val" : "pre-publication history section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + "val" : "The section labelled 'pre-publication history' in a typical scientific journal article, e.g. in Xiao et al. BMC Anesthesiol. 2013; 13: 33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016475/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "notice of republication" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "pre-publication history" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000600", - "lbl" : "elucidation", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000638", + "lbl" : "pre-publication history textual entity", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A textual entity that expresses the pre-publication history (submission dates, reviewer comments, etc) for a document, often including a hyperlink to a web page detailing the information." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "elucidation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "person:Alan Ruttenberg" + "val" : "pre-publication history textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Barry Smith" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Xiao et al. BMC Anesthesiol. 2013; 13: 33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016475/):\n\nThe pre-publication history for this paper can be accessed here:\nhttp://www.biomedcentral.com/1471-2253/13/33/prepub" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000601", - "lbl" : "has associated axiom(nl)", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000639", + "lbl" : "related work section", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A part of a document about work in other publications that is relevant to the content of the document." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has associated axiom(nl)" + "val" : "related work section" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'related work' in a typical scientific journal article, e.g. Žitnik and Zupan. Bioinformatics. 2015 Jun 15; 31(12): i230–i239. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542780/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "related literature" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An axiom associated with a term expressed using natural language" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "related work" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000602", - "lbl" : "has associated axiom(fol)", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000640", + "lbl" : "related work textual entity", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A textual entity that discusses work from other publications and expresses their relevancy to the content of a document." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has associated axiom(fol)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "related work textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Excerpt from Žitnik and Zupan. Bioinformatics. 2015 Jun 15; 31(12): i230–i239. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542780/):\n\nOur work presented here is similar in spirit to our recently developed methodology for data fusion via collective matrix factorization (Žitnik and Zupan, 2015).\n\n" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An axiom expressed in first order logic using CLIF syntax" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bill Baumgartner" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000603", - "lbl" : "is allocated id range", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000641", + "lbl" : "requirements section", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relates an ontology IRI to an (inclusive) range of IRIs in an OBO name space. The range is give as, e.g. \"IAO_0020000-IAO_0020999\"" + "val" : "A part of a document about a resource described in the document, e.g. software, that describes the requirements necessary to use the resource, e.g. operating systems, hardware, etc. in the case of a software resource." }, - "comments" : [ "Add as annotation triples in the granting ontology" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is allocated id range" + "val" : "requirements section" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The section labelled 'availability and requirements' in a typical scientific journal article, e.g. Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/)." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "requirements" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000604", - "lbl" : "retired from use as of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000642", + "lbl" : "requirements textual entity", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "relates a class of CRID to the date after which further instances should not be made, according to the central authority" + "val" : "A textual entity that expresses the requirements necessary to use a resource, e.g. software." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "retired from use as of" + "val" : "requirements textual entity" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "In OWL 2 add AnnotationPropertyRange xsd:dateTimeStamp" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/):\n\n• Operating systems: Platform independent\n\n• Programming language: Matlab, R, Python\n\n• Other requirements: None\n\n• License: GNU GPL v3\n\n• Any restrictions to use by non-academics: None" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" + "val" : "PERSON: Bill Baumgartner" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000605", - "lbl" : "abbreviation textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000643", + "lbl" : "statistical analysis textual entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity listing abbreviations and their expansions that are used in a document." + "val" : "A textual entity documenting statistical analysis tools and techniques employed." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "abbreviation textual entity" + "val" : "statistical analysis textual entity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/):\n\nBAC: Bacterial artificial chromosome; CR: Calretinin; GFAP: Glial fibrillary acidic protein; MAP: Microtubule-associated protein; MRI: Magnetic resonance imaging; NSC: Neural stem cell; PDA: Patent ductus arteriosus; PMG: Polymicrogyria; PNH: Periventricular nodular heterotopia; VSD: Ventricular septal defect." + "val" : "From Mondo et al. Cardiovasc J Afr. 2013 Mar; 24(2): 28–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734881/):\n\nData were captured into EPI-DATA (version 3.1), cleaned and then exported to Stata version 10 for analysis. Continuous variables were summarised as mean (± standard deviation) and median (inter-quartile range), and presented in the tables. Categorical data were analysed using frequency and percentages, and results are presented in frequency tables and bar charts. Test of significance (p-value) was determined using the chi-square test. A p-value of less than 0.05 was considered significant." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "PERSON: Bill Baumgartner" @@ -6938,1208 +6466,1057 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000606", - "lbl" : "abbreviations section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000644", + "lbl" : "statistical analysis section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document where abbreviations and their long-forms used within the document are listed." + "val" : "A part of the document used to describe the statistical methodologies employed in the work presented in the document." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "abbreviations section" + "val" : "statistical analysis section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'abbreviations' in a typical scientific journal article." + "val" : "The section labelled 'statistical analysis' in a typical scientific journal article, e.g. Mondo et al. Cardiovasc J Afr. 2013 Mar; 24(2): 28–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734881/)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviation and acronyms" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviation list" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviations and acronyms" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviations list" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "abbreviations used" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "definitions for abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "list of abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "list of abbreviations used" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "non-standard abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "nonstandard abbreviations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "nonstandard abbreviations and acronyms" + "val" : "statistical analysis" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000607", - "lbl" : "author information section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000645", + "lbl" : "tables section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the authors that provides biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document." + "val" : "A part of a document that contains one or more tables." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author information section" + "val" : "tables section" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'author information' in a typical scientific journal article, e.g. in Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/)" + "val" : "The section labelled 'tables' in a typical scientific journal article." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "PERSON: Bill Baumgartner" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "author information" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "authors’ information" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "biographies" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "contributor information" + "val" : "tables" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000608", - "lbl" : "author information textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000646", + "lbl" : "postal code", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity expression information about an author of a document. This information may include biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document." + "val" : "An identifier that denotes some postal delivery route, some aggregate of postal delivery routes or a geographical region and was created for the purpose of sorting and delivering mail." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author information textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/):\n\nIT [the author] is the lead paediatrician for ADHD services in East Hertfordshire, UK, where she runs a weekly joint ADHD clinic with the Child and Adolescent psychiatrist and works within an ADHD specialist team. IT also sees children with other neurodisability issues who may have comorbid ADHD, where the presentation may be more complex and challenging to manage. IT has vast experience in managing children with complex ADHD. She has 18 years of experience in paediatrics and also has extensive experience in the use of psychopharmacologic agents in managing children with ADHD." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000647", + "lbl" : "Postal delivery route", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A plan specification that if realized, is realized by the delivery of mail to some facility or mailbox within some geographical region." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000648", + "lbl" : "zone improvement plan code", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A postal code that is used in the United States for the purpose of sorting and delivering mail, and that denotes some postal delivery route or some aggregate of postal delivery routes." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ZIP code" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000609", - "lbl" : "author summary section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000650", + "lbl" : "database extract, transform, and load process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers." + "val" : "A planned process which takes as input a database and fills another database by extracting concretizations of information entities from the first, transforming them, and loading the transformed concretizations into the second." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author summary section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'synopsis' in a typical scientific journal article, e.g. in Pendse et al. BMC Genomics. 2013; 14: 136. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3608171/)" + "val" : "database extract, transform, and load process" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Alan Ruttenberg 12/21/16: Maybe this definition instead: A planned process which takes as input a database and copies concretizations from the first, optionally transforms then copies the result to the second" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "author summary" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Alan Ruttenberg 12/21/16: We don't define database in IAO, currently, as the bare word is ambiguous. Reasonable interpretations of the word might be the material entity, an information structure, an information content entity. However this definition commits, at least, to there being some material thing which bear concretizations of information entities and that there are new concretizations created during the process. We consider the ETL process in terms of information entities rather than the concretizations. No committment is made as to whether the specified output." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "summary" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "synopsis" + "val" : "ETL" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)" + "val" : "WEB:https://en.wikipedia.org/wiki/Extract,_transform,_load" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/187" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "https://github.com/information-artifact-ontology/IAO" + }, { + "pred" : "http://xmlns.com/foaf/0.1/page", + "val" : "https://en.wikipedia.org/wiki/Extract,_transform,_load" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000610", - "lbl" : "author summary textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000701", + "lbl" : "descriptive data section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers, e.g as described in the article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)." + "val" : "A document part that lists and defines data variables, describes data characteristics (e.g. missing data information) and any assumptions and simplifications made." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "author summary textual entity" + "val" : "descriptive data section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Pendse et al. BMC Genomics. 2013; 14: 136. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3608171/):\n\n\nThe search for genetic risk factors for common human diseases often relies on the use of linkage and association studies to establish correlation between genomic markers and disease risk. These studies require additional functional evaluation of candidate genes, including their possible interaction with diet and environment. The number of candidate genes is typically large and the development of appropriate genetic tools in mammalian systems is slow. By contrast, large-scale genetic screens, using widely available genetic tools, are routinely conducted in the fruit fly Drosophila melanogaster. In this study, we used Drosophila to screen candidate genes identified in human genome-wide scans as associated with risk of metabolic abnormalities such as type 2 diabetes. We show that a number of human candidate genes have fly orthologs that play an important role in Drosophila tolerance to high dietary sucrose. We further explored some of the specific metabolic abnormalities that can result when these genes’ activities are reduced in flies, focusing on a gene we call dHHEX (CG7056), the fly ortholog of human HHEX." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines)." + "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000611", - "lbl" : "availability section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000702", + "lbl" : "additional results section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about a resource described in the document, e.g. software, that describes where and/or how that resource can be obtained." + "val" : "A results section that reports analyses other than main results of the study (e.g. subgroups analyses, adjusted analyses, sensitivity analyses, etc.)" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "availability section" + "val" : "additional results section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'availability and requirements' in a typical scientific journal article, e.g. Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/)." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "availability" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "availability of data" + "val" : "PERSON: Chen Yang" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data archiving" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data availability" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/consort/" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data availability statement" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data sharing statement" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/strobe/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000612", - "lbl" : "availability textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000703", + "lbl" : "research participants section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity expressing the location of a resource, e.g. software, or the manner in which a resource can be obtained." + "val" : "A document part that describes human subject(s) that participated in a study (e.g. inclusion & exclusion criteria, recruitment methods, reasons for non-participation, grouping and randomisation, methods of follow-up, etc.)." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "availability textual entity" + "val" : "research participants section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/):\n\nProject home page:http://krux.googlecode.com" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/consort/" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/strobe-nut/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000613", - "lbl" : "case report section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000704", + "lbl" : "measurement methods section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the medical history of a specific patient as it relates to the topic of the document." + "val" : "A methods section that describes details of data assessment methods (data measurement)." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "case report section" + "val" : "measurement methods section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'case report' in a typical scientific journal article, e.g. in Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "case presentation" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "case report" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.equator-network.org/reporting-guidelines/strobe/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000614", - "lbl" : "case report textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0000705", + "lbl" : "research settings section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses a detailed account of a portion of the medical history for a specific patient." + "val" : "A document part that describes the physical/social/cultural conditions around a research trial." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "case report textual entity" + "val" : "research settings section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Excerpt from Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/):\n\nThe patient is a 50-year-old man. His medical history was not contributory. At the age of 37 years, he complained of persistent fatigue and dyspnoea even for modest efforts and oedema of lower limbs. The patient was examined at the department of internal medicine of the local hospital, and hospitalised with a diagnosis of dilated cardiomyopathy probably consequence of a myocarditis process. Soon after he was transferred to the cardiologic department of the regional hospital, and pharmacologically treated for heart failure and pulmonary hypertension." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.ncbi.nlm.nih.gov/books/NBK262175/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000615", - "lbl" : "conclusion section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000706", + "lbl" : "study bias section", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document used to summarize the findings discussed in the document. The conclusion section is typically found near the end of a document." + "val" : "A study limitations section that describes systematic error introduced into sampling or testing by selecting or encouraging one outcome or answer over others." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "conclusion section" + "val" : "study bias section" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'conclusion' in a typical scientific journal article." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "PERSON: Chen Yang" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "concluding remarks" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conclusion" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conclusions" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "findings" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Jie Zheng" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "summary" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "DOI: 10.1097/PRS.0b013e3181de24bc" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "ONE ontology" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000616", - "lbl" : "conflict of interest section", + "id" : "http://purl.obolibrary.org/obo/IAO_0000707", + "lbl" : "graphical abstract", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document used to declare any competing interests regarding the authors and/or funding organization for the work described in the document." + "val" : "An abstract that is pictorial summary of the main findings described in the document." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "conflict of interest section" + "val" : "graphical abstract" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'conflict of interest statement' in a typical scientific journal article." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "authors' disclosures of potential conflicts of interest" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "competing financial interests" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "competing interests" + "val" : "PERSON: Jie Zheng" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conflict of interest" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Tim Beck" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conflict of interest statement" + "val" : "visual abstract" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conflict of interests" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://www.elsevier.com/authors/journal-authors/graphical-abstract" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "conflicts of interest" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration of competing interest" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "Biomedical literature NLP project" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000708", + "lbl" : "ORCID identifier", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A centrally registered identifier that is issued by ORCID (https://orcid.org/) and used to persistantly identify oneself as a human researcher or contributor." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration of competing interests" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "\"You can connect your iD with your professional information — affiliations, grants, publications, peer review, and more. You can use your iD to share your information with other systems, ensuring you get recognition for all your contributions, saving you time and hassle, and reducing the risk of errors.\" [https://orcid.org/]" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration of interest" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This class was originally defined in Apollo_SV (http://purl.obolibrary.org/obo/APOLLO_SV_00000496) but due to it being more in scope of IAO, it was decided to add it to IAO and deprecate its Apollo_SV equivalent. (2022-10-25)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration of interests" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "http://orcid.org/0000-0002-1595-3213" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "disclosure of conflict of interest" + "val" : "ORCID ID" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "disclosure of potential conflicts of interest" + "val" : "ORCiD" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "duality of interest" + "val" : "Open Researcher and Contributor ID" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "statement of interest" + "val" : "Open Researcher and Contributor Identifier" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://orcid.org/" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/259" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000617", - "lbl" : "conflict of interest textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020000", + "lbl" : "identifier", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses a situation involving one or more of the authors, or the funding source of a document whereby the authors or funding source stand to potentially gain (typically financially) from the results reported in the document." + "val" : "An information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity." }, + "comments" : [ "Sep 29, 2016: The current definition has been amended from the previous version: \"A proper name is an information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity.\" to more accuratly reflect the necessary and sufficient condition on the class. (MB)" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "conflict of interest statement" + "val" : "identifier" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "SD [an author] is a Merck employee and Merck is the sponsor of this study. [Taken from 'Effects of obstructive sleep apnoea risk on postoperative respiratory complications: protocol for a hospital-based registry study' Shin et al. 2016 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4735131/)] " + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Justin Whorton" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "proper name" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000618", - "lbl" : "consent section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020001", + "lbl" : "grapheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the consent process that was used to enroll patients in a study." + "val" : "An information content entity that is a fundamental unit in a written language." }, + "comments" : [ "Grapheme is not about anything and hence is likely to not be an information content entity. If a new subclass of GDC for information structure entities is created it should move there." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "consent section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'consent' in a typical scientific journal article, e.g. Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/)" + "val" : "alphabetic letters, Chinese characters, numerical digits, punctuation marks, and the individual symbols of any of the world's writing systems" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Justin Whorton" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "consent" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Grapheme" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000619", - "lbl" : "consent textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020002", + "lbl" : "utterance", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that documents the consenting process used to enroll patients in a study." + "val" : "An utterance is an information content entity that is a complete unit of speech in spoken language. " }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "consent textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Shiba et al. Acta Neuropathol Commun. 2013; 1: 45. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893467/):\n\nWritten informed consent was obtained from the patient’s parents for publication of this Case report and any accompanying images. A copy of the written consent is available for review by the Editor-in chief of this journal." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Wikipedia: http://en.wikipedia.org/wiki/Utterance" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000620", - "lbl" : "ethical approval section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020003", + "lbl" : "mechanical wave quality", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the governance body responsible for approving the work discussed in a document on an ethical basis." + "val" : "An attributive collection of qualities inhering in energy when transported through a medium in a wave." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ethical approval section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'ethical approval' in a typical scientific journal article." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ethical approval" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ethical requirements" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ethics" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ethics statement" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000621", - "lbl" : "ethical approval textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020004", + "lbl" : "writing quality", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that documents the ethical approval of some study design." + "val" : "is a quality that is the concretization of graphemes and inheres in a material object." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ethical approval textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From McLean et al. 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" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0020009", + "lbl" : "oscillating", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Oscillating is a processual that shows repetitive variation, typically in time, of some measured quality about a central value (often a point of equilibrium) or between two or more different states." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "funding souce declaration textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Stephan et al. Accid Anal Prev. 2011 May; 43(3): 1062–1067. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3062852/):\n\nThis study was supported by the International Collaborative Research Grants Scheme with joint grants from the Wellcome Trust UK (GR071587MA) and the Australian NHMRC (268055). 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The multiplicity of code sets is partially due to the different specific purposes of those code sets.", "Many code sets are created for a specific purpose in addition to merely identifying or annotating core ideas of a specified domain.", "The information content entities do not denote each other." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "keywords section" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'keywords' in a typical scientific journal article." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Justin Whorton" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "keywords" + "val" : "code map" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000631", - "lbl" : "study limitations section", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A part of a document about biases or short comings related to the study design and execution." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study limitations section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'limitations' in a typical scientific journal article." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "code system" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "limitations" + "val" : "codeset" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "study limitations" + "val" : "coding system" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Author guidelines published by The Society for Academic Emergency Medicine. 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Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000632", - "lbl" : "study limitations textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020021", + "lbl" : "identity document", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity addressing a shortcoming or bias of a study design or execution." + "val" : "A document that denotes some identity and is concretized by the bearer of some credential role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study limitations textual entity" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Excerpt from the Limitations section of Fermann et al 2015, Acad Emerg Med. 2015 Mar; 22(3): 299–307 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4405051/). \n\nOwing to the nature of a post hoc study, any significant values must be interpreted with caution. In the current analysis, no multiple testing was conducted and p-values remain unadjusted. Moreover, a selection bias arising from the randomized open-label design of the original EINSTEIN PE study cannot be ruled out." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Author guidelines published by The Society for Academic Emergency Medicine. (http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1553-2712/homepage/ForAuthors.html)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000633", - "lbl" : "materials section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020022", + "lbl" : "documented identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the materials required to reproduce the content of the document." + "val" : "A documented identity is the aggregate of all data items about an entity. Notice that a documented identity is not itself a document since a document is intended to be understood as a whole and data items about an individual are usually scattered across different documents." }, + "comments" : [ "is an aggregate of ICEs also an ICE? yes\nIs part_of the appropriate relation to use for data items and documented identities?" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "materials section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'materials' in a typical scientific journal article, e.g. Nguyen et al. BMC Bioinformatics. 2010; 11: 279. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2889936/)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "materials" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000634", - "lbl" : "notes section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020023", + "lbl" : "authentication", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document containing typically short notes about the document itself and/or the authors. Often the notes section contains subsections related to funding, competing interests, ethical approval, etc." + "val" : "Authentication is the act of checking or verifying an identity claim (that is either tacit or explicit).\n" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "notes section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'notes' in a typical scientific journal article, e.g. McLean et al. Br J Gen Pract. 2014 Jul; 64(624): e440–e447 (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4073730/):" + "val" : " I order a beer and the bartender authenticates my age by looking at my DOB on my driver's license. I sign into my email account, and the system authenticates my permission to read the email by checking the password I enter against my password listed in the database." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "notes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000635", - "lbl" : "patients section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020024", + "lbl" : "credential role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about the patients that participated in a study." + "val" : "A role that inheres in a concretization of an identity document and is realized by an authentication process." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "patients section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'patients' in a typical scientific journal article, e.g. in Citak et al. Acta Orthop. 2013 Jun; 84(3): 326–327. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715825/)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000636", - "lbl" : "patients textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020025", + "lbl" : "obsolete obligor role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity expressing information regarding the patients used in a study." + "val" : "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "patients textual entity" + "val" : "obligor role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Excerpt from Citak et al. Acta Orthop. 2013 Jun; 84(3): 326–327. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715825/):\n\nBetween January 1996 and February 2012, we treated 4 patients with interprosthetic femoral fractures (3 of them women) (Figure 2) using a custom-made interposition device (Waldemar Link GmbH, Hamburg, Germany) (Figure 1). Mean age was 74 (59–86) years. The fractures occurred mean 18 (13–28) years after primary THA and mean 14 (10–17) years after primary TKA. At the latest follow-up, after mean 8 (0.5–16) years, revision surgery with a total femur replacement was required in 1 case due to aseptic loosening. No other complications requiring revision surgery occurred." + "val" : "Sam's obligor role realized by him taking Nigel to lunch after promising to do so; Sarah's obligor role realized by paying the purchase price to Layla after signing the contract specifying that she is buying a piece of land from Layla." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "duty holder role (IAO:210016)" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000637", - "lbl" : "pre-publication history section", + "id" : "http://purl.obolibrary.org/obo/IAO_0020026", + "lbl" : "obsolete obligee role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of the document about the publication history of a document. This section typically details dates of document submission to a journal and dates of any re-submissions as well as reviewer comments and responses to reviewers by the authors." + "val" : "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "pre-publication history section" + "val" : "obligee role" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'pre-publication history' in a typical scientific journal article, e.g. in Xiao et al. BMC Anesthesiol. 2013; 13: 33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016475/)" + "val" : "Nigel's obligee role realized by Sam taking him out for lunch after Sam so promised; Layla's obligee role realized by receiving the money after signing a contract in which Sarah obtained a piece of land in exchange for a specified sum of money." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "notice of republication" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "pre-publication history" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Sarah Bost" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "claimant role (IAO:0021013)" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000638", - "lbl" : "pre-publication history textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0020027", + "lbl" : "owner role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses the pre-publication history (submission dates, reviewer comments, etc) for a document, often including a hyperlink to a web page detailing the information." + "val" : "A role in a human social process that is based on a social act and whose bearer exercises exclusive control over a property, where this control is permitted by one or more deontic roles, which are parts of the owner role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "pre-publication history textual entity" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Xiao et al. BMC Anesthesiol. 2013; 13: 33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4016475/):\n\nThe pre-publication history for this paper can be accessed here:\nhttp://www.biomedcentral.com/1471-2253/13/33/prepub" + "val" : "Tammy's owner role with regards to the house on 234 Evergreen Terrace; Walter's owner role with regards to the intellectual property on his movie script" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "OBIB/ICO community" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://github.com/d-acts/d-acts/issues/29" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000639", - "lbl" : "related work section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021000", + "lbl" : "obsolete_claim", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0021001", + "lbl" : "deontic document act", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about work in other publications that is relevant to the content of the document." + "val" : "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "related work section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'related work' in a typical scientific journal article, e.g. Žitnik and Zupan. Bioinformatics. 2015 Jun 15; 31(12): i230–i239. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542780/)" + "val" : "my filling in an immigration form, a judge's signing and stamping a court order" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "related literature" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "related work" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000640", - "lbl" : "related work textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0021002", + "lbl" : "obsolete_document act", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that discusses work from other publications and expresses their relevancy to the content of a document." + "val" : "A social act creating, revoking or transferring a socio-legal generically dependent continuant or a role by validating (signing, stamping, publishing) a document." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "related work textual entity" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Excerpt from Žitnik and Zupan. Bioinformatics. 2015 Jun 15; 31(12): i230–i239. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4542780/):\n\nOur work presented here is similar in spirit to our recently developed methodology for data fusion via collective matrix factorization (Žitnik and Zupan, 2015).\n\n" + "val" : "my filling in an immigration form, a judge's signing and stamping a court order" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibary.org/obo/IAO_0021001" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000641", - "lbl" : "requirements section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021003", + "lbl" : "social act", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document about a resource described in the document, e.g. software, that describes the requirements necessary to use the resource, e.g. operating systems, hardware, etc. in the case of a software resource." + "val" : "A planned process that is carried out by a conscious being or an organization, and is self-generated, directed towards another conscious being or an aggregate of conscious beings, an organization or an aggregate of organizations, and that is in need of being perceived." }, + "comments" : [ "The phrase \"in need of being perceived\" does not imply that only planned processes that are in fact perceived can be social acts. Reinach clarifies that by exemplifying these matters for commands: \"The command is according to its essence in need of being heard (vernehmungsbedürtig\". It can of course happen that commands are given without being heard. Then they fail to fulfil their purpose. They are like thrown spears which fall to the ground without hitting their target.\" (A. Reinach: The Apriori Foundations of the Civil Law.\" Edited by J. Crosby, Heusenstamm: ontos Verlag, 2012).\nReinach clearly does not imply that a command that does not fulfill its prupose would not be a command.\nThanks to W.R. Hogan for finding the Reinach quote." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "requirements section" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'availability and requirements' in a typical scientific journal article, e.g. Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/)." + "val" : "Colonel Klink giving Sergeant Schultz an order, Jake promising Jill to take her to the junior prom" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "requirements" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000642", - "lbl" : "requirements textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0021004", + "lbl" : "obsolete_socio-legal generically dependent continuant", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity that expresses the requirements necessary to use a resource, e.g. software." + "val" : "Socio-legal generically dependent continuants are generically dependent continuants that come into existence through social acts and that if they get concretized are concretized as realizable entities." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "requirements textual entity" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Qi et al. BMC Bioinformatics. 2014; 15: 11. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3897912/):\n\n• Operating systems: Platform independent\n\n• Programming language: Matlab, R, Python\n\n• Other requirements: None\n\n• License: GNU GPL v3\n\n• Any restrictions to use by non-academics: None" + "val" : "the claim of a piece of land, the obligation to pay rent to the owner of a rental property" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "val" : "Mathias Brochhausen" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000643", - "lbl" : "statistical analysis textual entity", + "id" : "http://purl.obolibrary.org/obo/IAO_0021005", + "lbl" : "obsolete_deontic declaration", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A textual entity documenting statistical analysis tools and techniques employed." + "val" : "A social act that brings about, transfers or revokes a socio-legal generically dependent continuant or brings about or transforms a role. Declarations do not depend on words spoken or written, but sometimes are merely actions, for instance the signing of a document." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "statistical analysis textual entity" + "val" : "deontic declaration" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "From Mondo et al. Cardiovasc J Afr. 2013 Mar; 24(2): 28–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734881/):\n\nData were captured into EPI-DATA (version 3.1), cleaned and then exported to Stata version 10 for analysis. Continuous variables were summarised as mean (± standard deviation) and median (inter-quartile range), and presented in the tables. Categorical data were analysed using frequency and percentages, and results are presented in frequency tables and bar charts. Test of significance (p-value) was determined using the chi-square test. A p-value of less than 0.05 was considered significant." + "val" : "my consenting verbally to buy a used TV set for $ 500, John Robie's taking of Mrs. Steven's jewels, Jane Doe's revoking of informed consent over the phone, John Doe signing an employment contract." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "declaration" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "status function declaration" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000644", - "lbl" : "statistical analysis section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021006", + "lbl" : "obsolete obligee role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of the document used to describe the statistical methodologies employed in the work presented in the document." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "statistical analysis section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'statistical analysis' in a typical scientific journal article, e.g. Mondo et al. Cardiovasc J Afr. 2013 Mar; 24(2): 28–33. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734881/)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "statistical analysis" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" - } ] + "val" : "Mathias Brochhausen" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000645", - "lbl" : "tables section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021007", + "lbl" : "document act input document", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A part of a document that contains one or more tables." + "val" : "A document that is intended to be the specified input in a document act. It has a plan specification as a part that specifies the intended socio-legal entities that are created through the document (objective specification) and the way in which the document act is to be performed (by signing, by stamping, etc.) (action specification)." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "tables section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The section labelled 'tables' in a typical scientific journal article." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bill Baumgartner" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "tables" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/183" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000646", - "lbl" : "postal code", + "id" : "http://purl.obolibrary.org/obo/IAO_0021008", + "lbl" : "deontic role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identifier that denotes some postal delivery route, some aggregate of postal delivery routes or a geographical region and was created for the purpose of sorting and delivering mail." + "val" : "A role that inheres in an agent and which is externally grounded in the normative expectations that other agents within a social context have concerning how that agent should behave." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Neil Otte" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000647", - "lbl" : "Postal delivery route", + "id" : "http://purl.obolibrary.org/obo/IAO_0021009", + "lbl" : "deontic declaration", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A plan specification that if realized, is realized by the delivery of mail to some facility or mailbox within some geographical region." + "val" : "A social act that creates or revokes a deontic role." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", @@ -8147,3922 +7524,3475 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000648", - "lbl" : "zone improvement plan code", + "id" : "http://purl.obolibrary.org/obo/IAO_0021010", + "lbl" : "obsolete_obligation", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A postal code that is used in the United States for the purpose of sorting and delivering mail, and that denotes some postal delivery route or some aggregate of postal delivery routes." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ZIP code" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000650", - "lbl" : "database extract, transform, and load process", + "id" : "http://purl.obolibrary.org/obo/IAO_0021013", + "lbl" : "claimant role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process which takes as input a database and fills another database by extracting concretizations of information entities from the first, transforming them, and loading the transformed concretizations into the second." + "val" : "A deontic role that inheres in an agent A, that mutually depends on the existence of a duty holder role borne by agent B, and that specifies B doing or abstaining from C, or providing or surrendering C to A." }, + "comments" : [ "Claimant roles can either be discharged by one act of fulfilling a duty (e.g. when I pay back $5 owed to a friend) or they can remain intact and require ongoing adhering to a duty. \nhttps://plato.stanford.edu/entries/rights/#FormRighHohfAnalSyst discuss the claim of a child to freedom from abuse. That claim remains in existence and the duty to not abuse the child needs to be continuously be acted upon, by a multitude of agents (which all have a duty holder role). This claim is mutually dependent on the duty to abstain from abusing the child." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "database extract, transform, and load process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan Ruttenberg 12/21/16: Maybe this definition instead: A planned process which takes as input a database and copies concretizations from the first, optionally transforms then copies the result to the second" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Alan Ruttenberg 12/21/16: We don't define database in IAO, currently, as the bare word is ambiguous. Reasonable interpretations of the word might be the material entity, an information structure, an information content entity. However this definition commits, at least, to there being some material thing which bear concretizations of information entities and that there are new concretizations created during the process. We consider the ETL process in terms of information entities rather than the concretizations. No committment is made as to whether the specified output." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Alan Ruttenberg" + "val" : "J. Neil Otte" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ETL" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB:https://en.wikipedia.org/wiki/Extract,_transform,_load" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/187" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "https://github.com/information-artifact-ontology/IAO" + "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." }, { - "pred" : "http://xmlns.com/foaf/0.1/page", - "val" : "https://en.wikipedia.org/wiki/Extract,_transform,_load" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://plato.stanford.edu/entries/rights/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000700", - "lbl" : "has ontology root term", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0021014", + "lbl" : "obsolete_declaration executive role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Ontology annotation property. Relates an ontology to a term that is a designated root term of the ontology. Display tools like OLS can use terms annotated with this property as the starting point for rendering the ontology class hierarchy. There can be more than one root." + "val" : "The role borne by a human being, an organization or an aggregate of either of both that is realized by being the active participant in a declaration." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has ontology root term" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Nicolas Matentzoglu" - } ] + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000701", - "lbl" : "descriptive data section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021015", + "lbl" : "obsolete_document template creator role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document part that lists and defines data variables, describes data characteristics (e.g. missing data information) and any assumptions and simplifications made." + "val" : "The role of a human being or an aggregate of human beings preparing the initial document to undergo a document act, thus creating a socio-legal generically dependent continuant." }, + "comments" : [ "not that the \"template\" does not need to be a template at all. It can be a document that is getting stamped and signed and by these acts creating some socio-legal generically dependent continuants." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "descriptive data section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the role borne by the US Citizen and Immigration Service realized by providing the template form for entering the US as a non-resident alien, the role of a guideline committee in putting together a clinical guideline" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000702", - "lbl" : "additional results section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021016", + "lbl" : "duty holder role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A results section that reports analyses other than main results of the study (e.g. subgroups analyses, adjusted analyses, sensitivity analyses, etc.)" + "val" : "A deontic role that inheres in an agent A, that mutually depends on the existence of a claimant role borne by agent B, and that specifies A doing or abstaining from some acition C, or providing or surrendering C to B." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "additional results section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "val" : "J. Neil Otte" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/consort/" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" + "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/strobe/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" + "val" : "https://plato.stanford.edu/entries/rights/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000703", - "lbl" : "research participants section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021017", + "lbl" : "obsolete_claimant role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document part that describes human subject(s) that participated in a study (e.g. inclusion & exclusion criteria, recruitment methods, reasons for non-participation, grouping and randomisation, methods of follow-up, etc.)." + "val" : "The role of a human being or an aggregate of human beings concretizing a claim." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "research participants section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/consort/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/prisma/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/strobe-nut/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000704", - "lbl" : "measurement methods section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021018", + "lbl" : "obsolete_obligator role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A methods section that describes details of data assessment methods (data measurement)." + "val" : "The role of a human being or an aggregate of human beings concretizing an obligation." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "measurement methods section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.equator-network.org/reporting-guidelines/strobe/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000705", - "lbl" : "research settings section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021019", + "lbl" : "privilege holder role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document part that describes the physical/social/cultural conditions around a research trial." + "val" : "A deontic role that inheres in an agent A, that specifies that no agent B bears a claimant role against A doing C." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "research settings section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "val" : "J. Neil Otte" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.ncbi.nlm.nih.gov/books/NBK262175/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://plato.stanford.edu/entries/rights/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000706", - "lbl" : "study bias section", + "id" : "http://purl.obolibrary.org/obo/IAO_0021020", + "lbl" : "obsolete_declaration target", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A study limitations section that describes systematic error introduced into sampling or testing by selecting or encouraging one outcome or answer over others." + "val" : "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study bias section" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Chen Yang" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "me as a bearer of a spouse role, which participates in a document act, John Doe as bearer of a debtor role, which participates in a document act" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "DOI: 10.1097/PRS.0b013e3181de24bc" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/235" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "ONE ontology" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000707", - "lbl" : "graphical abstract", + "id" : "http://purl.obolibrary.org/obo/IAO_0021021", + "lbl" : "document act template creator role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An abstract that is pictorial summary of the main findings described in the document." + "val" : "A role that inheres in a human being or organization or aggregate of any of the aforementioned that prepares a document that is the specified input to a document act and is the input document of a document act." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "graphical abstract" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The role of the U.S. Citizenship and Immigration Service realized by the creation of an immigration form that is being filled in, the role of a national professional association realized by the creation of a clinical guideline that is to be certified" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Tim Beck" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "visual abstract" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://www.elsevier.com/authors/journal-authors/graphical-abstract" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/234" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "Biomedical literature NLP project" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0000708", - "lbl" : "ORCID identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0021022", + "lbl" : "deontic declaration performer role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A centrally registered identifier that is issued by ORCID (https://orcid.org/) and used to persistantly identify oneself as a human researcher or contributor." + "val" : "A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a declaration." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "\"You can connect your iD with your professional information — affiliations, grants, publications, peer review, and more. You can use your iD to share your information with other systems, ensuring you get recognition for all your contributions, saving you time and hassle, and reducing the risk of errors.\" [https://orcid.org/]" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This class was originally defined in Apollo_SV (http://purl.obolibrary.org/obo/APOLLO_SV_00000496) but due to it being more in scope of IAO, it was decided to add it to IAO and deprecate its Apollo_SV equivalent. (2022-10-25)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "http://orcid.org/0000-0002-1595-3213" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ORCID ID" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ORCiD" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "Open Researcher and Contributor ID" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "Open Researcher and Contributor Identifier" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://orcid.org/" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/259" + "val" : "declaration performer role" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0006011", - "lbl" : "may be identical to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0021023", + "lbl" : "power role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A annotation relationship between two terms in an ontology that may refer to the same (natural) type but where more evidence is required before terms are merged." + "val" : "A deontic role that, if realized, is realized by its bearer’s creating, altering, or annulling some deontic role." }, - "comments" : [ "Edges asserting this should be annotated with to record evidence supporting the assertion and its provenance." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "may be identical to" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "J. Neil Otte" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "#40" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "VFB" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://plato.stanford.edu/entries/rights/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0006012", - "lbl" : "scheduled for obsoletion on or after", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0021030", + "lbl" : "obsoleted_document act target", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Used when the class or object is scheduled for obsoletion/deprecation on or after a particular date." + "val" : "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "scheduled for obsoletion on or after" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall, Jie Zheng" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/15532" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/32" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", - "val" : "GO ontology" - } ] + "val" : "Mathias Brochhausen" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0010000", - "lbl" : "has axiom label", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0021031", + "lbl" : "document act performer role", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a document act." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has axiom id" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a judge's role of signing a court order" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A URI that is intended to be unique label for an axiom used for tracking change to the ontology. For an axiom expressed in different languages, each expression is given the same URI" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", - "val" : "http://purl.obolibrary.org/obo/iao.owl" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020000", - "lbl" : "identifier", + "id" : "http://purl.obolibrary.org/obo/IAO_0021032", + "lbl" : "obsolete_obligee role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." }, - "comments" : [ "Sep 29, 2016: The current definition has been amended from the previous version: \"A proper name is an information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity.\" to more accuratly reflect the necessary and sufficient condition on the class. (MB)" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "identifier" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" + "val" : "Sarah Bost" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "proper name" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020001", - "lbl" : "grapheme", + "id" : "http://purl.obolibrary.org/obo/IAO_0021033", + "lbl" : "obsolete_obligor role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is a fundamental unit in a written language." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." }, - "comments" : [ "Grapheme is not about anything and hence is likely to not be an information content entity. If a new subclass of GDC for information structure entities is created it should move there." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "alphabetic letters, Chinese characters, numerical digits, punctuation marks, and the individual symbols of any of the world's writing systems" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Grapheme" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "val" : "Sarah Bost" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020002", - "lbl" : "utterance", + "id" : "http://purl.obolibrary.org/obo/IAO_0021102", + "lbl" : "standing declaration", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An utterance is an information content entity that is a complete unit of speech in spoken language. " + "val" : "A social act that postulates a socio-legal fact for a specified group of people or organizations." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Wikipedia: http://en.wikipedia.org/wiki/Utterance" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "enactment" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020003", - "lbl" : "mechanical wave quality", + "id" : "http://purl.obolibrary.org/obo/IAO_0021300", + "lbl" : "obsolete obligor role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An attributive collection of qualities inhering in energy when transported through a medium in a wave." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "John Judkins" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" - } ] + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020004", - "lbl" : "writing quality", + "id" : "http://purl.obolibrary.org/obo/IAO_8000000", + "lbl" : "ontology module", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "is a quality that is the concretization of graphemes and inheres in a material object." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ontology module" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "I have placed this under 'data about an ontology part', but this can be discussed. I think this is OK if 'part' is interpreted reflexively, as an ontology module is the whole ontology rather than part of it." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ontology file" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This class and it's subclasses are applied to OWL ontologies. Using an rdf:type triple will result in problems with OWL-DL. I propose that dcterms:type is instead used to connect an ontology URI with a class from this hierarchy. The class hierarchy is not disjoint, so multiple assertions can be made about a single ontology." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020005", - "lbl" : "writing bearer", + "id" : "http://purl.obolibrary.org/obo/IAO_8000001", + "lbl" : "base ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "is a material information bearer that bears the concretization of graphemes." + "val" : "An ontology module that comprises only of asserted axioms local to the ontology, excludes import directives, and excludes axioms or declarations from external ontologies." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "pieces of paper, tables, walls, floors, driveways, highway signs, computer screens, skin, tablets of clay, rocks, sheets of metal (license plates), sheets of papyrus, etc. clouds of smoke in skywriting," - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "base ontology module" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/INCATools/ontology-starter-kit/issues/50" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020006", - "lbl" : "portion of energy", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020007", - "lbl" : "sound energy", + "id" : "http://purl.obolibrary.org/obo/IAO_8000002", + "lbl" : "editors ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Energy that is transported in a sound wave." + "val" : "An ontology module that is intended to be directly edited, typically managed in source control, and typically not intended for direct consumption by end-users." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "editors ontology module" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "source ontology module" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020008", - "lbl" : "utterance energy", + "id" : "http://purl.obolibrary.org/obo/IAO_8000003", + "lbl" : "main release ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Sound energy bearing the concretization of an utterance and being the output of an uttering process. " - } + "val" : "An ontology module that is intended to be the primary release product and the one consumed by the majority of tools." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "main release ontology module" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "TODO: Add logical axioms that state that a main release ontology module is derived from (directly or indirectly) an editors module" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020009", - "lbl" : "oscillating", + "id" : "http://purl.obolibrary.org/obo/IAO_8000004", + "lbl" : "bridge ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Oscillating is a processual that shows repetitive variation, typically in time, of some measured quality about a central value (often a point of equilibrium) or between two or more different states." + "val" : "An ontology module that consists entirely of axioms that connect or bridge two distinct ontology modules. For example, the Uberon-to-ZFA bridge module." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Oscillation" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "bridge ontology module" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/obophenotype/uberon/wiki/inter-anatomy-ontology-bridge-ontologies" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020010", - "lbl" : "identifier creating process", + "id" : "http://purl.obolibrary.org/obo/IAO_8000005", + "lbl" : "import ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identifier creating process is a planned process that provides a reference to an individual entity shared by a group of subscribers to refer to that individual entity." + "val" : "A subset ontology module that is intended to be imported from another ontology." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "import ontology module" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "dubbing process" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "TODO: add axioms that indicate this is the output of a module extraction process." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "naming" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "val" : "import file" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://robot.obolibrary.org/extract" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020011", - "lbl" : "utterance process", + "id" : "http://purl.obolibrary.org/obo/IAO_8000006", + "lbl" : "subset ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "is a planned process of making speech sounds which may or may not have an actual language involved. " + "val" : "An ontology module that is extracted from a main ontology module and includes only a subset of entities or axioms." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "subset ontology module" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wiktionary.org/wiki/utter" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ontology slim" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020012", - "lbl" : "obsolete_designates", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "x designates y, if for any given group of language users, x is an information content entity, is about y, and represents y in a linguistic context.." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000228" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "subset ontology" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/IAO_0000219" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://robot.obolibrary.org/filter" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://www.geneontology.org/page/go-slim-and-subset-guide" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020013", - "lbl" : "is_borrowed_reference_to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_8000007", + "lbl" : "curation subset ontology module", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "x is_borrowed_reference_for y, if x is a proper name that is used to refer to one individual among a specific group after the dubbing process took place." + "val" : "A subset ontology that is intended as a whitelist for curators using the ontology. Such a subset will exclude classes that curators should not use for curation." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "curation subset ontology module" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020014", - "lbl" : "is_fixing_reference_to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_8000008", + "lbl" : "analysis subset ontology module", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "x is_fixed_reference_for y, if x is an utterance or graphemes concretized as writing quality inhering in some independent continuant that is used to single out one individual and refer to the latter among a specific group after the." + "val" : "An ontology module that is intended for usage in analysis or discovery applications." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "analysis ontology module" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020015", - "lbl" : "personal name", + "id" : "http://purl.obolibrary.org/obo/IAO_8000009", + "lbl" : "single layer subset ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identifier referring to an individual entity that is ascribed personhood by the user of the identifier." + "val" : "A subset ontology that is largely comprised of a single layer or strata in an ontology class hierarchy. The purpose is typically for rolling up for visualization. The classes in the layer need not be disjoint." }, - "comments" : [ "Personal names \"today usually comprises a given name bestowed at birth or at a young age plus a surname. It is nearly universal for a human to have a name; except in rare cases, for example feral children growing up in isolation, or infants orphaned by natural disaster for whom no written record survives.[citation needed] The Convention on the Rights of the Child specifies that a child has the right from birth to a name. Certain isolated tribes, such as the Machiguenga of the Amazon, also lack personal names.\" (http://en.wikipedia.org/wiki/Personal_name)", "Personal names to not include names of fictional characters, e.g. Sherlock Holmes.", "Sep 29, 2016: The comment that including the wikipedia definition of personal name is not to be interpreted in a way that restricts this class to only contain strings of letters. A numerical or alphanumerical identifier that denotes a human is being is a personal name, too. (MB)" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Personal_name" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "single layer ontology module" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ribbon subset" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020016", - "lbl" : "given name", + "id" : "http://purl.obolibrary.org/obo/IAO_8000010", + "lbl" : "exclusion subset ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A personal name that specifies and differentiates between members of a group of individuals, especially in a family, all of whose members usually share the same family name (surname). A given name is purposefully given, usually by a child's parents at or near birth, in contrast to an inherited one such as a family name" + "val" : "A subset of an ontology that is intended to be excluded for some purpose. For example, a blacklist of classes." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "exclusion subset ontology module" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "first name" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Given_name" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "val" : "antislim" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020017", - "lbl" : "family name", + "id" : "http://purl.obolibrary.org/obo/IAO_8000011", + "lbl" : "external import ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identifier that is typically a part of a person's name which has been passed, according to law or custom, from one or both parents to their children." + "val" : "An imported ontology module that is derived from an external ontology. Derivation methods include the OWLAPI SLME approach." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "external import ontology module" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "last name" + "val" : "external import" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_8000012", + "lbl" : "species subset ontology module", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A subset ontology that is crafted to either include or exclude a taxonomic grouping of species." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "species subset ontology module" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "surname" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://en.wikipedia.org/wiki/Family_name" + "val" : "taxon subset" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/obophenotype/uberon/wiki/Taxon-constraints" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020018", - "lbl" : "is designated by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_8000013", + "lbl" : "reasoned ontology module", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "p1 is designated by p2, if p2 is an information content entity that represents p1 in a linguistic context." + "val" : "An ontology module that contains axioms generated by a reasoner. The generated axioms are typically direct SubClassOf axioms, but other possibilities are available." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "reasoned ontology module" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://robot.obolibrary.org/reason" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020019", - "lbl" : "IUI", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_8000014", + "lbl" : "generated ontology module", + "type" : "CLASS", "meta" : { - "comments" : [ "An annotation to be applied to individuals only. Value is a GUID/UUID for use in a referent tracking system." ], + "definition" : { + "val" : "An ontology module that is automatically generated, for example via a SPARQL query or via template and a CSV." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "instance unique identifier" + "val" : "generated ontology module" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "TODO: Add axioms (using PROV-O?) that indicate this is the output-of some reasoning process" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020020", - "lbl" : "code set", + "id" : "http://purl.obolibrary.org/obo/IAO_8000015", + "lbl" : "template generated ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is a collection of other information content entities that has been created to identify or annotate things in a specified domain, and where the intention of its creators is that the collection has a one-to-one correspondence with those things." + "val" : "An ontology module that is automatically generated from a template specification and fillers for slots in that template." }, - "comments" : [ "Code sets might include non-entities/things (e.g. missing thumbs).", "Does not imply absence vs. presence of any taxonomy.", "Does not imply that aggregated entities denote particulars, universals, or defined classes (a.k.a. attributive collections) or even that they denote only one of these three types of entities.", "Each aggregated entity is often (but not necessarily) associated with a text string—variously called a “description,” “name,” “title,” or “label”—that helps humans reach the target of denotation.\n\nWhen there is no such string, it is almost always because the entities take the form of human language words. For example, a “sex” or “gender” code set could contain “MALE” and “FEMALE,” or even “M” and “F” (by convention, we understand what these mean).", "For National Drug Codes (NDCs) and similar code sets, there doesn’t even have to be a single, fully-concretized copy somewhere (for example, for NDCs there is no centralized database or repository where they all live as one instance of concretization of code set). The code set can be “distributively” concretized. This seems like an unusual exception, but it also likely applies to Universal Product Codes (UPCs) and their follow on Global Trade Item Numbers (GTINs).", "For each given domain, there can potentially exist multiple code sets. The multiplicity of code sets is partially due to the different specific purposes of those code sets.", "Many code sets are created for a specific purpose in addition to merely identifying or annotating core ideas of a specified domain.", "The information content entities do not denote each other." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Justin Whorton" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "code map" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "code system" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "codeset" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "coding system" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "controlled vocabulary" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/information-artifact-ontology/IAO/issues/237" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "template generated ontology module" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matt Diller" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://robot.obolibrary.org/template" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://doi.org/10.1186/s13326-017-0126-0" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://github.com/dosumis/dead_simple_owl_design_patterns/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020021", - "lbl" : "identity document", + "id" : "http://purl.obolibrary.org/obo/IAO_8000016", + "lbl" : "taxonomic bridge ontology module", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A document that denotes some identity and is concretized by the bearer of some credential role." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "taxonomic bridge ontology module" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020022", - "lbl" : "documented identity", + "id" : "http://purl.obolibrary.org/obo/IAO_8000017", + "lbl" : "ontology module subsetted by expressivity", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A documented identity is the aggregate of all data items about an entity. Notice that a documented identity is not itself a document since a document is intended to be understood as a whole and data items about an individual are usually scattered across different documents." - }, - "comments" : [ "is an aggregate of ICEs also an ICE? yes\nIs part_of the appropriate relation to use for data items and documented identities?" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ontology module subsetted by expressivity" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020023", - "lbl" : "authentication", + "id" : "http://purl.obolibrary.org/obo/IAO_8000018", + "lbl" : "obo basic subset ontology module", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Authentication is the act of checking or verifying an identity claim (that is either tacit or explicit).\n" + "val" : "A subset ontology that is designed for basic applications to continue to make certain simplifying assumptions; many of these simplifying assumptions were based on the initial version of the Gene Ontology, and have become enshrined in many popular and useful tools such as term enrichment tools.\n\nExamples of such assumptions include: traversing the ontology graph ignoring relationship types using a naive algorithm will not lead to cycles (i.e. the ontology is a DAG); every referenced term is declared in the ontology (i.e. there are no dangling clauses).\n\nAn ontology is OBO Basic if and only if it has the following characteristics:\nDAG\nUnidirectional\nNo Dangling Clauses\nFully Asserted\nFully Labeled\nNo equivalence axioms\nSingly labeled edges\nNo qualifier lists\nNo disjointness axioms\nNo owl-axioms header\nNo imports" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : " I order a beer and the bartender authenticates my age by looking at my DOB on my driver's license. I sign into my email account, and the system authenticates my permission to read the email by checking the password I enter against my password listed in the database." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "obo basic subset ontology module" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://owlcollab.github.io/oboformat/doc/obo-syntax.html#6.2" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020024", - "lbl" : "credential role", + "id" : "http://purl.obolibrary.org/obo/IAO_8000019", + "lbl" : "ontology module subsetted by OWL profile", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A role that inheres in a concretization of an identity document and is realized by an authentication process." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ontology module subsetted by OWL profile" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020025", - "lbl" : "obsolete obligor role", + "id" : "http://purl.obolibrary.org/obo/IAO_8000020", + "lbl" : "EL++ ontology module", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "EL++ ontology module" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/MF_0000030", + "lbl" : "representation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." + "val" : "A dependent continuant which is about a portion of reality." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obligor role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Sam's obligor role realized by him taking Nigel to lunch after promising to do so; Sarah's obligor role realized by paying the purchase price to Layla after signing the contract specifying that she is buying a piece of land from Layla." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Sarah Bost" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "duty holder role (IAO:210016)" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.jbiomedsem.com/content/1/1/10" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020026", - "lbl" : "obsolete obligee role", + "id" : "http://purl.obolibrary.org/obo/MF_0000031", + "lbl" : "cognitive representation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." + "val" : "A representation which specifically depends on an anatomical structure in the cognitive system of an organism." }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.jbiomedsem.com/content/1/1/10" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/NCBITaxon_9606", + "lbl" : "Homo sapiens", + "type" : "CLASS", + "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obligee role" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Nigel's obligee role realized by Sam taking him out for lunch after Sam so promised; Layla's obligee role realized by receiving the money after signing a contract in which Sarah obtained a piece of land in exchange for a specified sum of money." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Homo sapiens" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "human being" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "claimant role (IAO:0021013)" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/ncbitaxon.owl" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0020027", - "lbl" : "owner role", + "id" : "http://purl.obolibrary.org/obo/OAE_0000002", + "lbl" : "medical intervention", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role in a human social process that is based on a social act and whose bearer exercises exclusive control over a property, where this control is permitted by one or more deontic roles, which are parts of the owner role." + "val" : "medical intervention is a planned process that has the goal of diagnosing, preventing or relieving illness or injury." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Tammy's owner role with regards to the house on 234 Evergreen Terrace; Walter's owner role with regards to the intellectual property on his movie script" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "The act of intervening, interfering or interceding with the intent of modifying the outcome. In medicine, an intervention is usually undertaken to help treat or cure a condition. For example, \"Acupuncture as a therapeutic intervention is widely practiced in the United States,\" \nReference:\nhttp://www.medterms.com/script/main/art.asp?articlekey=34214 . Some interventions can be used for diagnosis. " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBIB/ICO community" + "val" : "YH" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/d-acts/d-acts/issues/29" + "val" : "WEB: http://wiki.answers.com/Q/What_is_medical_intervention" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021000", - "lbl" : "obsolete_claim", + "id" : "http://purl.obolibrary.org/obo/OAE_0000067", + "lbl" : "surgery", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "Surgery is a medical procedure that uses operative manual and instrumental techniques on a patient to investigate and/or treat a pathological condition such as disease or injury, to help improve bodily function or appearance. The key difference between a surgery and a general procedure is the need for an incision. Making an incision, or cutting into the skin to gain access to the body’s deeper tissues or organs, is a defining characteristic of surgery." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "YH, SS" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "surgical procedure" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Surgery" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm" + }, { + "pred" : "http://purl.obolibrary.org/obo/OAE_0004334", + "val" : "10042609" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021001", - "lbl" : "deontic document act", + "id" : "http://purl.obolibrary.org/obo/OAE_0002807", + "lbl" : "medical procedure", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." + "val" : "a medical intervention that refers to any series of pre-defined steps that should be followed to achieve a desired result." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my filling in an immigration form, a judge's signing and stamping a court order" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "YH, SS" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021002", - "lbl" : "obsolete_document act", + "id" : "http://purl.obolibrary.org/obo/OBIB_0000667", + "lbl" : "survey data", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act creating, revoking or transferring a socio-legal generically dependent continuant or a role by validating (signing, stamping, publishing) a document." + "val" : "A data item that contains the outcome of a survey." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my filling in an immigration form, a judge's signing and stamping a court order" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alice Nzinga" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibary.org/obo/IAO_0021001" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021003", - "lbl" : "social act", + "id" : "http://purl.obolibrary.org/obo/OBIB_0000701", + "lbl" : "survey plan specification", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that is carried out by a conscious being or an organization, and is self-generated, directed towards another conscious being or an aggregate of conscious beings, an organization or an aggregate of organizations, and that is in need of being perceived." + "val" : "A plan specification that is realized by process of gathering information (e.g. by asking questions)." }, - "comments" : [ "The phrase \"in need of being perceived\" does not imply that only planned processes that are in fact perceived can be social acts. Reinach clarifies that by exemplifying these matters for commands: \"The command is according to its essence in need of being heard (vernehmungsbedürtig\". It can of course happen that commands are given without being heard. Then they fail to fulfil their purpose. They are like thrown spears which fall to the ground without hitting their target.\" (A. Reinach: The Apriori Foundations of the Civil Law.\" Edited by J. Crosby, Heusenstamm: ontos Verlag, 2012).\nReinach clearly does not imply that a command that does not fulfill its prupose would not be a command.\nThanks to W.R. Hogan for finding the Reinach quote." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Colonel Klink giving Sergeant Schultz an order, Jake promising Jill to take her to the junior prom" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alice Nzinga" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021004", - "lbl" : "obsolete_socio-legal generically dependent continuant", + "id" : "http://purl.obolibrary.org/obo/OBIB_0000710", + "lbl" : "survey execution", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Socio-legal generically dependent continuants are generically dependent continuants that come into existence through social acts and that if they get concretized are concretized as realizable entities." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the claim of a piece of land, the obligation to pay rent to the owner of a rental property" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + "val" : "A planned process that realizes the concretization of a survey to generate an output(survey data.)" + } } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021005", - "lbl" : "obsolete_deontic declaration", + "id" : "http://purl.obolibrary.org/obo/OBI_0000011", + "lbl" : "planned process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act that brings about, transfers or revokes a socio-legal generically dependent continuant or brings about or transforms a role. Declarations do not depend on words spoken or written, but sometimes are merely actions, for instance the signing of a document." + "val" : "A process that realizes a plan which is the concretization of a plan specification." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "deontic declaration" + "val" : "planned process" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "planned process" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my consenting verbally to buy a used TV set for $ 500, John Robie's taking of Mrs. Steven's jewels, Jane Doe's revoking of informed consent over the phone, John Doe signing an employment contract." + "val" : "Injecting mice with a vaccine in order to test its efficacy" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "status function declaration" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some \nobjectives is a planned process." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021006", - "lbl" : "obsolete obligee role", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." - }, - "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + "val" : "Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "branch derived" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "6/11/9: Edited at workshop. Used to include: is initiated by an agent" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021007", - "lbl" : "document act input document", + "id" : "http://purl.obolibrary.org/obo/OBI_0000066", + "lbl" : "investigation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document that is intended to be the specified input in a document act. It has a plan specification as a part that specifies the intended socio-legal entities that are created through the document (objective specification) and the way in which the document act is to be performed (by signing, by stamping, etc.) (action specification)." + "val" : "a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s)." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "investigation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021008", - "lbl" : "deontic role", + "id" : "http://purl.obolibrary.org/obo/OBI_0000245", + "lbl" : "organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that inheres in an agent and which is externally grounded in the normative expectations that other agents within a social context have concerning how that agent should behave." + "val" : "An organization is a continuant entity which can play roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "organization" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "PMID: 16353909.AAPS J. 2005 Sep 22;7(2):E274-80. Review. The joint food and agriculture organization of the United Nations/World Health Organization Expert Committee on Food Additives and its role in the evaluation of the safety of veterinary drug residues in foods." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "BP: The definition summarizes long email discussions on the OBI developer, roles, biomaterial and denrie branches. It leaves open if an organization is a material entity or a dependent continuant, as no consensus was reached on that. The current placement as material is therefore temporary, in order to move forward with development. Here is the entire email summary, on which the definition is based:\n\n1) there are organization_member_roles (president, treasurer, branch\neditor), with individual persons as bearers\n\n2) there are organization_roles (employer, owner, vendor, patent holder)\n\n3) an organization has a charter / rules / bylaws, which specify what roles\nthere are, how they should be realized, and how to modify the\ncharter/rules/bylaws themselves.\n\nIt is debatable what the organization itself is (some kind of dependent\ncontinuant or an aggregate of people). This also determines who/what the\nbearer of organization_roles' are. My personal favorite is still to define\norganization as a kind of 'legal entity', but thinking it through leads to\nall kinds of questions that are clearly outside the scope of OBI.\n\nInterestingly enough, it does not seem to matter much where we place\norganization itself, as long as we can subclass it (University, Corporation,\nGovernment Agency, Hospital), instantiate it (Affymetrix, NCBI, NIH, ISO,\nW3C, University of Oklahoma), and have it play roles.\n\nThis leads to my proposal: We define organization through the statements 1 -\n3 above, but without an 'is a' statement for now. We can leave it in its\ncurrent place in the is_a hierarchy (material entity) or move it up to\n'continuant'. We leave further clarifications to BFO, and close this issue\nfor now." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "PERSON: Alan Ruttenberg" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Neil Otte" + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Philippe Rocca-Serra" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Susanna Sansone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP: OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021009", - "lbl" : "deontic declaration", + "id" : "http://purl.obolibrary.org/obo/OBI_0000471", + "lbl" : "study design execution", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act that creates or revokes a deontic role." + "val" : "a planned process that carries out a study design" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "study design execution" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021010", - "lbl" : "obsolete_obligation", + "id" : "http://purl.obolibrary.org/obo/OBI_0100026", + "lbl" : "organism", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "organism" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "animal" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "fungus" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "plant" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "virus" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000121" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "13-02-2009:\nOBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus.\nThis issue is outside the scope of OBI." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "GROUP: OBI Biomaterial Branch" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "WEB: http://en.wikipedia.org/wiki/Organism" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021011", - "lbl" : "legally revokes", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OBI_0200000", + "lbl" : "data transformation", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "d socio-legally revokes s if s participates in d and at the end of d s no longer exists.\nIt is important to note that this going out of existence of s is complete and unlike the going out of existence for material entities which basically always are transformed into something else. After the declaration nothing is left of the socio-legal generically dependent continuant in question." + "val" : "A planned process that produces output data from input data." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "data transformation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The application of a clustering protocol to microarray data or the application of a statistical testing method on a primary data set to determine a p-value." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Elisabetta Manduchi" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Helen Parkinson" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "James Malone" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Philippe Rocca-Serra" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Richard Scheuermann" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Ryan Brinkman" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Tina Hernandez-Boussard" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data analysis" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "data processing" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Branch editors" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021012", - "lbl" : "obsolete_legally transfers", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OBI_0500000", + "lbl" : "study design", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "d socio-legally transfers l if l participates in d and d has specified input (concretization of l)1 and specified output (concretization of l)2, where (concretization of l)1 and (concretization of l)2 are not identical." + "val" : "A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "study design" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021013", - "lbl" : "claimant role", + "id" : "http://purl.obolibrary.org/obo/OBI_0600052", + "lbl" : "dialysis", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic role that inheres in an agent A, that mutually depends on the existence of a duty holder role borne by agent B, and that specifies B doing or abstaining from C, or providing or surrendering C to A." + "val" : "a protocol application that uses diffusion through a semi-permeable membrane to separate an input material into two fractions of different composition" }, - "comments" : [ "Claimant roles can either be discharged by one act of fulfilling a duty (e.g. when I pay back $5 owed to a friend) or they can remain intact and require ongoing adhering to a duty. \nhttps://plato.stanford.edu/entries/rights/#FormRighHohfAnalSyst discuss the claim of a child to freedom from abuse. That claim remains in existence and the duty to not abuse the child needs to be continuously be acted upon, by a multitude of agents (which all have a duty holder role). This claim is mutually dependent on the duty to abstain from abusing the child." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "J. Neil Otte" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "dialysis" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the use of a dialysis bag of select pore size to remove salt from collagen isolated from mouse cartilage" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Kevin Clancy" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://plato.stanford.edu/entries/rights/" + "val" : "OBI branch derived" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021014", - "lbl" : "obsolete_declaration executive role", + "id" : "http://purl.obolibrary.org/obo/OGMS_0000097", + "lbl" : "health care encounter", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The role borne by a human being, an organization or an aggregate of either of both that is realized by being the active participant in a declaration." + "val" : "A temporally-connected health care process that has as participants an organization or person realizing the health care provider role and a person realizing the patient role. The health care provider role and patient are realized during the health care encounter" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Albert Goldfain" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "creation date: 2011-02-21T09:57:44Z" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021015", - "lbl" : "obsolete_document template creator role", + "id" : "http://purl.obolibrary.org/obo/OGMS_0000100", + "lbl" : "inpatient encounter", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The role of a human being or an aggregate of human beings preparing the initial document to undergo a document act, thus creating a socio-legal generically dependent continuant." + "val" : "A health care encounter involving a patient who has been admitted to a health care facility and remains in a hospital facility for at least one night." }, - "comments" : [ "not that the \"template\" does not need to be a template at all. It can be a document that is getting stamped and signed and by these acts creating some socio-legal generically dependent continuants." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the role borne by the US Citizen and Immigration Service realized by providing the template form for entering the US as a non-resident alien, the role of a guideline committee in putting together a clinical guideline" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Albert Goldfain" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "creation date: 2011-02-21T09:57:44Z" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021016", - "lbl" : "duty holder role", + "id" : "http://purl.obolibrary.org/obo/OGMS_0000102", + "lbl" : "injury", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic role that inheres in an agent A, that mutually depends on the existence of a claimant role borne by agent B, and that specifies A doing or abstaining from some acition C, or providing or surrendering C to B." + "val" : "A disorder that involves some structural damage that is immediately caused by a catastrophic external force." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "J. Neil Otte" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "At the scale of organism (as opposed to the cellular scale or the population scale), an injury is typically the result of a catastrophic event. Consider the implications of making 'injury' a subtype of 'disorder'.\n\nNote: Adopted subtype of disorder, and injury can occur at the scale of organism down to cellular level." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Albert Goldfain\nSagar Jain" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." + "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/ca0ad373f27774c5\n\nOGMS call adoption- 16 SEPT 2015\nhttps://docs.google.com/document/d/1iiV1-fTS7BUUSzDw3N_Afx42698YWf54-FOTY2NkAxo/edit" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://plato.stanford.edu/entries/rights/" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "creation date: 2011-09-20T09:57:44Z\nedited date: 30 SEPT 2015" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021017", - "lbl" : "obsolete_claimant role", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000060", + "lbl" : "obsolete survey data", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "The role of a human being or an aggregate of human beings concretizing a claim." - }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alice Nzinga" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000667" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021018", - "lbl" : "obsolete_obligator role", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0001025", + "lbl" : "obsolete survey plan specification", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "The role of a human being or an aggregate of human beings concretizing an obligation." - }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alice Nzinga" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000701" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021019", - "lbl" : "privilege holder role", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0001035", + "lbl" : "obsolete survey execution", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000710" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000000", + "lbl" : "social security number", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic role that inheres in an agent A, that specifies that no agent B bears a claimant role against A doing C." + "val" : "Social Security Number(SSN) is a Centrally Registered IDentifier that is a nine-digit number issued to U.S. citizens, permanent residents, and temporary (working) residents under section 205(c) of the Social Security Act, codified as 42 U.S.C. § 405(c). The number is issued to an individual by the Social Security Administration, an independent agency of the United States government. Its primary purpose is to track individuals for Social Security purposes." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "J. Neil Otte" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "SSN" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." + "val" : "http://en.wikipedia.org/wiki/Social_Security_number" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://plato.stanford.edu/entries/rights/" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Cheng Chen(cxchen1@ualr.edu)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021020", - "lbl" : "obsolete_declaration target", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000001", + "lbl" : "human social role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." + "val" : "A social role inhering in a human being." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "me as a bearer of a spouse role, which participates in a document act, John Doe as bearer of a debtor role, which participates in a document act" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021021", - "lbl" : "document act template creator role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000002", + "lbl" : "party to a legal entity", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000003", + "lbl" : "party to a legal proceeding", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000004", + "lbl" : "party to a legal agreement", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000005", + "lbl" : "party to a marriage contract", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000006", + "lbl" : "party to a power of attorney", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000007", + "lbl" : "gender role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that inheres in a human being or organization or aggregate of any of the aforementioned that prepares a document that is the specified input to a document act and is the input document of a document act." + "val" : "A human social role borne by a human being being realized in behaviour which is considered socially appropriate for individuals of a specific sex in the context of a specific culture." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The role of the U.S. Citizenship and Immigration Service realized by the creation of an immigration form that is being filled in, the role of a national professional association realized by the creation of a clinical guideline that is to be certified" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Gender_role" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021022", - "lbl" : "deontic declaration performer role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000008", + "lbl" : "male gender role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a declaration." + "val" : "A gender role borne by a human being that is realized in behaviour which is considered socially appropriate for individuals of the male sex in the context of the culture in question." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "declaration performer role" + "val" : "male gender" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021023", - "lbl" : "power role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000009", + "lbl" : "female gender role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic role that, if realized, is realized by its bearer’s creating, altering, or annulling some deontic role." + "val" : "A gender role borne by a human being that is realized in behaviour which is considered socially appropriate for individuals of the female sex in the context of the culture in question." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "J. Neil Otte" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Hohfeld, WN: Fundamental Legal Conceptions as Applied in Judicial Reasoning. Yale University Press, 1919." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://plato.stanford.edu/entries/rights/" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "female gender" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021030", - "lbl" : "obsoleted_document act target", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000010", + "lbl" : "human health care role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." + "val" : "A role in human social processes that is realized by health care processes such as seeking or providing treatment for disease and injury, diagnosing disease and injury, or undergoing diagnosis." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "health care role" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021031", - "lbl" : "document act performer role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000011", + "lbl" : "patient role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a document act." + "val" : "A role borne by an organism and that is realized by presenting to a health care provider in a clinical encounter." }, + "comments" : [ "In order to avoid the presumption of the formal structures and institutions of Western civilization, bearing a patient role does not entail that the organism presents at an official place of business, with an organization formally and legally registered with various gov't entities, with a person endowed by the gov't with certain certifications." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a judge's role of signing a court order" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "patient" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "CAFE domain expert working group." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021032", - "lbl" : "obsolete_obligee role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000012", + "lbl" : "health care provider role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." + "val" : "A human health care role inhering in an organization or human being that is realized by a process of providing health care services to an organism." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Sarah Bost" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021033", - "lbl" : "obsolete_obligor role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000013", + "lbl" : "physician role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." + "val" : "A health care role borne by a human being and realized by promoting, maintaining or restoring human health through the study, diagnosis, and treatment of disease, injury and other physical and mental impairments." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Sarah Bost" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", - "val" : "http://purl.obolibrary.org/obo/IAO_0000103" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "physician" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Physician" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021102", - "lbl" : "standing declaration", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000014", + "lbl" : "nurse role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act that postulates a socio-legal fact for a specified group of people or organizations." + "val" : "A health care role borne by a human being and realized by the care of individuals, families, and communities so they may attain, maintain, or recover optimal health and quality of life." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "enactment" + "val" : "nurse" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "based on: http://en.wikipedia.org/wiki/Nursing" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0021300", - "lbl" : "obsolete obligor role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000015", + "lbl" : "health care provider organization role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." + "val" : "A role that inheres in an organization and that is realized by the providing of services in a health care encounter." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Mathias Brochhausen" - } ], - "deprecated" : true + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "Amanda Hicks" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_0100001", - "lbl" : "term replaced by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000016", + "lbl" : "person health care provider role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000017", + "lbl" : "physician practice", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Use on obsolete terms, relating the term to another term that can be used as a substitute" + "val" : "A health care provider organization role that inheres in an organization consisting of two or more physicians." }, - "comments" : [ "Add as annotation triples in the granting ontology" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "term replaced by" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000000", - "lbl" : "ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000018", + "lbl" : "obsolete_hospital role", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A role borne by an organization and realized by providing healthcare services by healthcare professionals of multiple different disciplines of medicine and enabling stationary treatment." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "I have placed this under 'data about an ontology part', but this can be discussed. I think this is OK if 'part' is interpreted reflexively, as an ontology module is the whole ontology rather than part of it." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ontology file" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This class and it's subclasses are applied to OWL ontologies. Using an rdf:type triple will result in problems with OWL-DL. I propose that dcterms:type is instead used to connect an ontology URI with a class from this hierarchy. The class hierarchy is not disjoint, so multiple assertions can be made about a single ontology." - } ] + "val" : "hospital" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000001", - "lbl" : "base ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000019", + "lbl" : "integrated delivery network", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that comprises only of asserted axioms local to the ontology, excludes import directives, and excludes axioms or declarations from external ontologies." + "val" : "A health care provider organization role that inheres in an organization that is comprised of other organizations." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "base ontology module" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://github.com/INCATools/ontology-starter-kit/issues/50" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000002", - "lbl" : "editors ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000022", + "lbl" : "collection of organisms", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is intended to be directly edited, typically managed in source control, and typically not intended for direct consumption by end-users." + "val" : "An object aggregate of organisms." }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "editors ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "source ontology module" - } ] + "comments" : [ "Any arbitrary collection of organisms. They need not be of the same taxonomic class. " ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000003", - "lbl" : "main release ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000023", + "lbl" : "collection of humans", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is intended to be the primary release product and the one consumed by the majority of tools." + "val" : "An object aggregate all of whose components are human beings." }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "main release ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "TODO: Add logical axioms that state that a main release ontology module is derived from (directly or indirectly) an editors module" - } ] + "comments" : [ "An object aggregate all of whose components are human beings." ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000004", - "lbl" : "bridge ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000024", + "lbl" : "obsolete role in human social processes", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that consists entirely of axioms that connect or bridge two distinct ontology modules. For example, the Uberon-to-ZFA bridge module." + "val" : "A role inhering in an entity realized by social interactions in human society." }, + "comments" : [ "Previous definition: A role played by an entity in human social processes." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "bridge ontology module" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://github.com/obophenotype/uberon/wiki/inter-anatomy-ontology-bridge-ontologies" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000005", - "lbl" : "import ontology module", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000025", + "lbl" : "organization social role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset ontology module that is intended to be imported from another ontology." + "val" : "A role in human social processes that inheres in an organization." }, + "comments" : [ "Defined class that we will ultimately move to an application ontology. We are leaving here for now until we determine which application ontology: it is likely going to be an ontology that does not currently (2012-06-05) exist.\n\nDitto for its current descendants." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "import ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "TODO: add axioms that indicate this is the output of a module extraction process." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "import file" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://robot.obolibrary.org/extract" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000006", - "lbl" : "subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000026", + "lbl" : "organism social role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is extracted from a main ontology module and includes only a subset of entities or axioms." + "val" : "A role in human social processes that inheres in an organism." }, + "comments" : [ "Defined class that we will ultimately move to an application ontology. We are leaving here for now until we determine which application ontology: it is likely going to be an ontology that does not currently (2012-06-05) exist.\n\nDitto for its current descendants.", "Includes animals as well as humans. For example, pet, assistance animal, animal grown for food, work animal, domesticated animal, K-9, etc. Human roles include gender role, party to legal entities, health care provider roles like doctor, nurse, etc.", "Previous definition: A role in human social processes played by an organism." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "subset ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ontology slim" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "subset ontology" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://robot.obolibrary.org/filter" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://www.geneontology.org/page/go-slim-and-subset-guide" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan\nMathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000007", - "lbl" : "curation subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000027", + "lbl" : "organization health care role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset ontology that is intended as a whitelist for curators using the ontology. Such a subset will exclude classes that curators should not use for curation." + "val" : "An organization social role that, if realized, is realized by either a health care process or an ancillary health care process" }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "curation subset ontology module" - } ] + "comments" : [ "Previous definition: An organization social role played by an organization in health care processes." ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000008", - "lbl" : "analysis subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000028", + "lbl" : "obsolete geopolitical organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is intended for usage in analysis or discovery applications." + "val" : "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii)." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "analysis ontology module" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "geopolitical organization" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000009", - "lbl" : "single layer subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000029", + "lbl" : "obsolete geopoli organization", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A subset ontology that is largely comprised of a single layer or strata in an ontology class hierarchy. The purpose is typically for rolling up for visualization. The classes in the layer need not be disjoint." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "single layer ontology module" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ribbon subset" - } ] + "val" : "geopoli organization" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000010", - "lbl" : "exclusion subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000030", + "lbl" : "human patient role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset of an ontology that is intended to be excluded for some purpose. For example, a blacklist of classes." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "exclusion subset ontology module" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "antislim" - } ] + "val" : "A patient role that inheres in a human being." + } } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000011", - "lbl" : "external import ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000031", + "lbl" : "obsolete major administrative subdivision", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An imported ontology module that is derived from an external ontology. Derivation methods include the OWLAPI SLME approach." + "val" : "A subnational entity that is the primary organizational member of a nation, is subject to the full set of laws of the nation, enjoys all the privileges established under the laws of the nation, is not a member of any other geopolitical entity, and itself governs a part of the geographical region governed by the nation." }, + "comments" : [ "example: Northern Ireland" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "external import ontology module" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "external import" - } ] + "val" : "major administrative subdivision" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000012", - "lbl" : "species subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000032", + "lbl" : "obsolete geopolitical dependency", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset ontology that is crafted to either include or exclude a taxonomic grouping of species." + "val" : "A subnational entity that does not possess full political independence or sovereignty as a sovereign state, but remains politically outside of the controlling state and controls a geographical region that is outside the controlling state's integral region." }, + "comments" : [ "Typically, the common feature is that the dependency does not conduct foreign affairs, and relegates this authority to the sovereign state. BUt otherwise, it is largely or completely autonomous relative to the administrative subdivisions. Examples include Puerto Rico (U.S.), Guam (U.S.), Greenland (Denmark), French Polynesia (France), and Falkland Islands (United Kingdom). " ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "species subset ontology module" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "taxon subset" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://github.com/obophenotype/uberon/wiki/Taxon-constraints" - } ] + "val" : "geopolitical dependency" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000013", - "lbl" : "reasoned ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000033", + "lbl" : "aggregate of organizations", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that contains axioms generated by a reasoner. The generated axioms are typically direct SubClassOf axioms, but other possibilities are available." + "val" : "An object aggregate that is not itself an organization and whose members are only organizations that have some feature in common" }, + "comments" : [ "It is often convenient to group organizations together that otherwise might not even interact with one another. " ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "reasoned ontology module" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://robot.obolibrary.org/reason" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan\nAmanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/omrse/releases/2022-04-06/omrse.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000014", - "lbl" : "generated ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000034", + "lbl" : "obsolete aggregate of sovereign states", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is automatically generated, for example via a SPARQL query or via template and a CSV." + "val" : "An aggregate of sovereign states that share some feature in common, but is not an organization nor necessarily the outcome of some treaty among them." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "generated ontology module" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "An aggregate of geopoli organizations that is not itself a sovereign state and whose members are only sovereign states that have some feature in common" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "TODO: Add axioms (using PROV-O?) that indicate this is the output-of some reasoning process" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "aggregate of sovereign states" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000015", - "lbl" : "template generated ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000035", + "lbl" : "obsolete aggregate of geopoli organizations", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ontology module that is automatically generated from a template specification and fillers for slots in that template." + "val" : "An object aggregate that is not itself a geopolitical organization and whose members are only geopolitical organizations that have some feature in common" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "template generated ontology module" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://robot.obolibrary.org/template" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://doi.org/10.1186/s13326-017-0126-0" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://github.com/dosumis/dead_simple_owl_design_patterns/" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "aggregate of geopoli organizations" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000016", - "lbl" : "taxonomic bridge ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000036", + "lbl" : "obsolete aggregate of dependencies", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An aggregate of geopoli organizations that is not itself a geopolitical dependency and whose members are only geopolitical dependencies that have some feature in common." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "taxonomic bridge ontology module" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "aggregate of dependencies" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000017", - "lbl" : "ontology module subsetted by expressivity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000037", + "lbl" : "obsolete aggregate of major administrative subdivisions", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An aggregate of geopoli organizations that is not itself a major administrative subdivision and whose members are only major administrative subdivisions that have some feature in common" + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ontology module subsetted by expressivity" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "aggregate of major administrative subdivisions" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000018", - "lbl" : "obo basic subset ontology module", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000038", + "lbl" : "legal person role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A subset ontology that is designed for basic applications to continue to make certain simplifying assumptions; many of these simplifying assumptions were based on the initial version of the Gene Ontology, and have become enshrined in many popular and useful tools such as term enrichment tools.\n\nExamples of such assumptions include: traversing the ontology graph ignoring relationship types using a naive algorithm will not lead to cycles (i.e. the ontology is a DAG); every referenced term is declared in the ontology (i.e. there are no dangling clauses).\n\nAn ontology is OBO Basic if and only if it has the following characteristics:\nDAG\nUnidirectional\nNo Dangling Clauses\nFully Asserted\nFully Labeled\nNo equivalence axioms\nSingly labeled edges\nNo qualifier lists\nNo disjointness axioms\nNo owl-axioms header\nNo imports" + "val" : "A role borne by a human individual or by a collection of humans regarded as possessing rights and duties enforeable at law." }, + "comments" : [ "We are aware of the fact that Wikipedia's definition differs from ours by saying that \"Legal personality (...) is the characteristic of a non-living entity regarded by law to have the status of personhood\" (http://en.wikipedia.org/wiki/Legal_personality) \nHowever, Shaw explicates:\n\"In any legal system, certain entities, whether they be individuals or companies, will be regarded as possessing rights and duties enforceable at law. Thus an individual may prosecute or be prosecuted for assault and a company can sue for breach of contract. They are able to do this because the law recognises them as 'legal persons' possessing the capacity to have and to maintain certain rights, and being subject to perform specific duties. (...) In municipal law individuals, limited companies and public corporations are recognized as each possessing a distinct legal personality, the terms of which are circumscribed by the relevant legislation\" (Shaw MN: International Law. Sixth Edition. Cambridge University Press, Cambridge, 2008). We hold that Shaw's position is ontological more prolific since it not only allows to explain how groups of individuals become recognized as unities at law, but also how different individuals can hold different legal personality roles (always against the context of one legal system). The latter will proof useful when dealing with the representing comatous patients or minorsat law in ontologies." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "obo basic subset ontology module" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://owlcollab.github.io/oboformat/doc/obo-syntax.html#6.2" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Malcolm N. Shaw: International Law. Cambridge University Press, Cambridge, 2008." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000019", - "lbl" : "ontology module subsetted by OWL profile", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000039", + "lbl" : "smoker role", "type" : "CLASS", "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ontology module subsetted by OWL profile" - } ] + "definition" : { + "val" : "A role that inheres in an organism and is realized by habitually smoking tobacco products." + } } }, { - "id" : "http://purl.obolibrary.org/obo/IAO_8000020", - "lbl" : "EL++ ontology module", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "EL++ ontology module" - } ] - } + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000040", + "lbl" : "intravenous drug user", + "type" : "CLASS" }, { - "id" : "http://purl.obolibrary.org/obo/MF_0000030", - "lbl" : "representation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000041", + "lbl" : "obsolete intergovernmental organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A dependent continuant which is about a portion of reality." + "val" : "an intergovernmental organization that has at least three member states, that has activies in at least three states, and that is unified by some formal intergovernmental agreement" }, + "comments" : [ "examples:\nNorth American Free Trade Argreement [NAFTA] , Universal Postal Union [UPU], Oragnaization of American States [OAS], World Bank), Organization of Petroleum exporting countries [OPEC] United Nations [UN[, The World Trade Organization [WTO], The World Health Organization [WHO], UNICEF" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "intergovernmental organization" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.jbiomedsem.com/content/1/1/10" - } ] + "val" : "\"IGOs are organizations whose memebers include at lesat three states, that have activities in several states, and whose members are held together by a formal intergovernmental agreement ... These organizations range in size from three members (North American Free Trade Argreement [NAFTA]) to more than 190 memembers (Universal Postal Union (UPU)]. Memebers may come from primarily one georgraphic regioni (Oragnaization of American States [OAS]) or from all geographic regions (World Bank). although soem IGOs are designed to achieve a single purpose (Organization of Petroleum exporting countries [OPEC]), others have been developed for multiple tasks (United Nations [UN}). ... IGOs are recognized subjects of international law with separate standing fromt heir member states.\" Karns and Mingst I(2004) p. 7" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Katrina Donovan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/MF_0000031", - "lbl" : "cognitive representation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000042", + "lbl" : "obsolete nongovernmental organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A representation which specifically depends on an anatomical structure in the cognitive system of an organism." + "val" : "a geopolitical organization that is voluntary and private, whose members are individual persons or organizations that come together to acheive a common purpose." }, + "comments" : [ "Examples:\nInternaltion Federation of Red Cross and Red Crescent Societies, Oxfam, CARE, Doctors Without Borders, World Wildlife Fund, Transparency International, Human Rights Watch, Amnesty International, and Save the Children." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "nongovernmental organizations" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.jbiomedsem.com/content/1/1/10" - } ] + "val" : "NGOs are private voluntary organizations whose members are individuals or associations that come together to acheive a common purpose. Some organizations are formed to advocate a particular cause such as human rights, peace, or envirnomental projetion. Others are established to provide services such as disaster relief, humantarian aid in war-torn socieities, or development assistance. ... National level groups are often called interest or pressure groups, and many of them are now linked to counterpart groups in other countries through transnational networks or federations. International NGOs, like IGOs, may draw their members from one region or several regions, and they may have very specific functions or be multi-functional.\n\nKarns and Mingst (2004) p. 10f." + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Katrina Donovan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/NCBITaxon_9606", - "lbl" : "Homo sapiens", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000043", + "lbl" : "obsolete private governance organizations", "type" : "CLASS", "meta" : { + "comments" : [ "Examples: private bond-rating agencies such as Moody's Investors Service, International Chamber of Commerce, Worldwide Responsible Apparel Manufacturing Principles, Forest Stewardship" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "Homo sapiens" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "human being" + "val" : "private governance organizations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/ncbitaxon.owl" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "\"Although the very meaning of the term is controversial, it involves authoritative decsionmaking in areas that once were part of national legal frameworks, the government, the sovereign state, or the public sector.\"\n\nKarns and Mingst (2004) p. 14." + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Katrina Donovan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OAE_0000002", - "lbl" : "medical intervention", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000044", + "lbl" : "obsolete governmental organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "medical intervention is a planned process that has the goal of diagnosing, preventing or relieving illness or injury." + "val" : "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii). \n\nNote: this definition was taken over from \"geopolitical organization\"." }, + "comments" : [ "IMPORTANT: The label \"geopolitical organization\" was previously used for OMRSE_00000044 (governmental organization). \"geopoli organization\" is a label for a new and different class." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The act of intervening, interfering or interceding with the intent of modifying the outcome. In medicine, an intervention is usually undertaken to help treat or cure a condition. For example, \"Acupuncture as a therapeutic intervention is widely practiced in the United States,\" \nReference:\nhttp://www.medterms.com/script/main/art.asp?articlekey=34214 . Some interventions can be used for diagnosis. " - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "YH" + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://wiki.answers.com/Q/What_is_medical_intervention" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "governmental organization" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OAE_0000067", - "lbl" : "surgery", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000045", + "lbl" : "obsolete sovereign state", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Surgery is a medical procedure that uses operative manual and instrumental techniques on a patient to investigate and/or treat a pathological condition such as disease or injury, to help improve bodily function or appearance. The key difference between a surgery and a general procedure is the need for an incision. Making an incision, or cutting into the skin to gain access to the body’s deeper tissues or organs, is a defining characteristic of surgery." + "val" : "A governmental organization with a defined territory on which it exercises internal and external sovereignty, a permanent population, a government, and the capacity to enter into relations with other sovereign states." }, + "comments" : [ "", "Per Wikipedia, the word 'nation' does not always refer to soverign states. For example, the \"nation of Islam\"." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "YH, SS" + "val" : "William R. Hogan" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "surgical procedure" + "val" : "nation" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Surgery" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "nation state" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "sovereign state" }, { - "pred" : "http://purl.obolibrary.org/obo/OAE_0004334", - "val" : "10042609" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://en.wikipedia.org/wiki/Sovereign_state" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OAE_0002807", - "lbl" : "medical procedure", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000046", + "lbl" : "obsolete subnational entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a medical intervention that refers to any series of pre-defined steps that should be followed to achieve a desired result." + "val" : "a governmental organization that has a local, regional, or territorial government that recognizes a sovereign state as its higher political authority" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "YH, SS" + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "subnational entity" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OAE_0004334", - "lbl" : "has_MedDRA_id", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OBIB_0000667", - "lbl" : "survey data", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000047", + "lbl" : "obsolete supranational entity", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A data item that contains the outcome of a survey." - }, + "comments" : [ "e.g., the EU" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alice Nzinga" + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "supranational entity" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OBIB_0000701", - "lbl" : "survey plan specification", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000048", + "lbl" : "material entity role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000049", + "lbl" : "organism role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000050", + "lbl" : "Homo sapiens role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000051", + "lbl" : "organization role", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000052", + "lbl" : "hospital function", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A plan specification that is realized by process of gathering information (e.g. by asking questions)." + "val" : "A function inhering in a material entity that, if realized, is realized by the material entity being the site at which inpatient and outpatient healthcare is provided to a patient population." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alice Nzinga" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBIB_0000710", - "lbl" : "survey execution", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000053", + "lbl" : "school function", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that realizes the concretization of a survey to generate an output(survey data.)" - } + "val" : "A function inhering in a material entity that, if realized, is realized by that material entity being the site at which formal education is provided to a student population." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000011", - "lbl" : "planned process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000054", + "lbl" : "hospital role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A process that realizes a plan which is the concretization of a plan specification." + "val" : "A healthcare provider role that inheres in an organization and is realized by providing inpatient care." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "planned process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "planned process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Injecting mice with a vaccine in order to test its efficacy" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some \nobjectives is a planned process." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Bjoern Peters" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "branch derived" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "6/11/9: Edited at workshop. Used to include: is initiated by an agent" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000066", - "lbl" : "investigation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000055", + "lbl" : "school role", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s)." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "investigation" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "An organization social role that inheres in an organization and is realized by providing formal education to students." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000245", - "lbl" : "organization", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000056", + "lbl" : "hospital organization", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organization is a continuant entity which can play roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members." + "val" : "An organization that is the bearer of a hospital role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "organization" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "PMID: 16353909.AAPS J. 2005 Sep 22;7(2):E274-80. Review. The joint food and agriculture organization of the United Nations/World Health Organization Expert Committee on Food Additives and its role in the evaluation of the safety of veterinary drug residues in foods." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "BP: The definition summarizes long email discussions on the OBI developer, roles, biomaterial and denrie branches. It leaves open if an organization is a material entity or a dependent continuant, as no consensus was reached on that. The current placement as material is therefore temporary, in order to move forward with development. Here is the entire email summary, on which the definition is based:\n\n1) there are organization_member_roles (president, treasurer, branch\neditor), with individual persons as bearers\n\n2) there are organization_roles (employer, owner, vendor, patent holder)\n\n3) an organization has a charter / rules / bylaws, which specify what roles\nthere are, how they should be realized, and how to modify the\ncharter/rules/bylaws themselves.\n\nIt is debatable what the organization itself is (some kind of dependent\ncontinuant or an aggregate of people). This also determines who/what the\nbearer of organization_roles' are. My personal favorite is still to define\norganization as a kind of 'legal entity', but thinking it through leads to\nall kinds of questions that are clearly outside the scope of OBI.\n\nInterestingly enough, it does not seem to matter much where we place\norganization itself, as long as we can subclass it (University, Corporation,\nGovernment Agency, Hospital), instantiate it (Affymetrix, NCBI, NIH, ISO,\nW3C, University of Oklahoma), and have it play roles.\n\nThis leads to my proposal: We define organization through the statements 1 -\n3 above, but without an 'is a' statement for now. We can leave it in its\ncurrent place in the is_a hierarchy (material entity) or move it up to\n'continuant'. We leave further clarifications to BFO, and close this issue\nfor now." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Philippe Rocca-Serra" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Susanna Sansone" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GROUP: OBI" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000293", - "lbl" : "has_specified_input", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000057", + "lbl" : "school organization", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The inverse property of is_specified_input_of" + "val" : "An organization that is the bearer of a school role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has_specified_input" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has_specified_input" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "see is_input_of example_of_usage" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Larry Hunter" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Coutot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000295", - "lbl" : "is_specified_input_of", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000299", - "lbl" : "has_specified_output", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000058", + "lbl" : "student role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The inverse property of is_specified_output_of" + "val" : "A human social role that, if realized, is realized by the process of formal education that the bearer undergoes." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has_specified_output" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has_specified_output" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Alan Ruttenberg" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Bjoern Peters" - }, { + "val" : "Mathias Brochhausen" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000059", + "lbl" : "nursery school role", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Larry Hunter" - }, { + "val" : "Mathias Brochhausen" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000060", + "lbl" : "primary school role", + "type" : "CLASS", + "meta" : { + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON: Melanie Courtot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000312", - "lbl" : "is_specified_output_of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000061", + "lbl" : "architectural structure", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of." + "val" : "A material entity that is a human made strcuture with firm connection between its foundation and the ground." }, + "comments" : [ "\"Building\" is a subclass of this. ", "This type of entity is referred to as \"Bauwerk\" or \"Bauliche Anlage\"." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is_specified_output_of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is_specified_output_of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alan Ruttenberg" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Bjoern Peters" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://de.wikipedia.org/wiki/Bauwerk" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000471", - "lbl" : "study design execution", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000062", + "lbl" : "facility", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a planned process that carries out a study design" + "val" : "An architectural structure that bears some function." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study design execution" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0000846", - "lbl" : "is member of organization", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000063", + "lbl" : "hospital facility", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization." + "val" : "A health care facility that bears the function to provide acute and intensive healthcare services and that is run by a hospital organization and is the bearer of a hospital function." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is member of organization" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000120" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "2009/10/01 Alan Ruttenberg. Barry prefers generic is-member-of. Question of what the range should be. For now organization. Is organization a population? Would the same relation be used to record members of a population" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "JZ: Discussed on May 7, 2012 OBI dev call. Bjoern points out that we need to allow for organizations to be members of organizations. And agreed by the other OBI developers. So, human and organization were specified in 'Domains'. The textual definition was updated based on it." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Alan Ruttenberg" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person:Helen Parkinson" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Alan Ruttenberg" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Person:Helen Parkinson" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" + "val" : "William Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0001688", - "lbl" : "has organization member", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000064", + "lbl" : "school facility", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relating an organization to a legal person or organization." + "val" : "A facility that is run by a school organization and is the bearer of a school function." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has organization member" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "See tracker:\nhttps://sourceforge.net/tracker/index.php?func=detail&aid=3512902&group_id=177891&atid=886178" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Person: Jie Zheng" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0100026", - "lbl" : "organism", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000065", + "lbl" : "secondary school role", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "organism" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "animal" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "fungus" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "plant" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "virus" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000121" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "13-02-2009:\nOBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus.\nThis issue is outside the scope of OBI." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "GROUP: OBI Biomaterial Branch" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "WEB: http://en.wikipedia.org/wiki/Organism" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0200000", - "lbl" : "data transformation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000066", + "lbl" : "pediatric trauma patient role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that produces output data from input data." + "val" : "A trauma patient role that inheres in a homo sapiens who is under the age of 15 years." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "data transformation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The application of a clustering protocol to microarray data or the application of a statistical testing method on a primary data set to determine a p-value." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000122" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Elisabetta Manduchi" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Helen Parkinson" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "pediatric trauma patient" }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "The following definition for 'pediatric trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\n\"A trauma patient who is under the age of 15 years.\"" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000067", + "lbl" : "injured patient role", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A patient role that inheres an organism suffering one or more injuries." + }, + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "James Malone" + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Melanie Courtot" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "injured patient" }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "The following definition for 'injured patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering one or more injuries." + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000069", + "lbl" : "burn patient role", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A patient role that inheres in an organism suffering a thermal, electrical, chemical or radiation burn." + }, + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Philippe Rocca-Serra" + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Richard Scheuermann" + "val" : "The following definition for 'burn patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering a thermal, electrical, chemical or radiation burn." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Ryan Brinkman" - }, { + "val" : "burn patient" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000072", + "lbl" : "physiatrist role", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A physician role that is created by training and certification in rehabilitation/physical medicine and that is realized by the provision of or supervising of the provision of rehabilitation or physical therapy to a patient." + }, + "comments" : [ "Definition updated May 5, 2016. Original definitions was, a health care role borne by a human being and realized by training and certification in rehabilitation medicine." ], + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Tina Hernandez-Boussard" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data analysis" + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "data processing" + "val" : "physiatrist" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Branch editors" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "val" : "The following definition for 'physiatrist' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA physician with training and certification in rehabilitation/physical medicine." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0500000", - "lbl" : "study design", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000073", + "lbl" : "trauma patient role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution." + "val" : "A patient role that inheres in an organism with some non-superficial traumatic injury. The role is realized by admision to a hospital, transfer from one hospital to another for the purpose of trauma care, or has death as a result of the traumatic injury." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "study design" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "trauma patient" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "The following definition for 'trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient sustaining an injury who has been admitted to the hospital, transferred from one hospital to another for the purpose of trauma care, or has died as a result of the traumatic injury." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OBI_0600052", - "lbl" : "dialysis", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000074", + "lbl" : "housing unit", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a protocol application that uses diffusion through a semi-permeable membrane to separate an input material into two fractions of different composition" + "val" : "A material entity that has as parts one or more sites large enough to contain humans, has as part one or more material entities that separates it from other sites, and bears a residence function." }, + "comments" : [ "Housing units are individuated by their residence functions." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "dialysis" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the use of a dialysis bag of select pore size to remove salt from collagen isolated from mouse cartilage" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "PERSON:Kevin Clancy" + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBI branch derived" + "val" : "https://github.com/ufbmi/OMRSE/wiki/Housing-unit-and-Household" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OGMS_0000097", - "lbl" : "health care encounter", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000075", + "lbl" : "residence function", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A temporally-connected health care process that has as participants an organization or person realizing the health care provider role and a person realizing the patient role. The health care provider role and patient are realized during the health care encounter" + "val" : "A function that inheres in a material entity and, if realized, is realized by protecting persons and their possessions from weather and by some person or group of persons habitually sleeping in at least one site that is contained by that material entity." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Albert Goldfain" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "creation date: 2011-02-21T09:57:44Z" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OGMS_0000100", - "lbl" : "inpatient encounter", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000076", + "lbl" : "household", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care encounter involving a patient who has been admitted to a health care facility and remains in a hospital facility for at least one night." + "val" : "A human or collection of humans that occupies a housing unit by storing their possessions there and habitually sleeping there thereby participating in the realization of that housing unit's residence function." }, + "comments" : [ "Note in OMRSE it is the housing unit, not the people living there, that are the bearers of a \"residence function\". Note the distinction between being a residence and a resident.", "Note that it is not possible in OWL 2, at least that we have yet found, to say that the housing unit in which the process occurs is the same one that is the bearer of the residence function (that the process realizes)." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Albert Goldfain" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "creation date: 2011-02-21T09:57:44Z" + "val" : "Amanda Hicks" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OGMS_0000102", - "lbl" : "injury", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000077", + "lbl" : "job role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A disorder that involves some structural damage that is immediately caused by a catastrophic external force." + "val" : "A role in human social processes that, if realized, is realized when the bearer provides labor or services in exchange for a wage or salary as specified by some deontic declaration." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "At the scale of organism (as opposed to the cellular scale or the population scale), an injury is typically the result of a catastrophic event. Consider the implications of making 'injury' a subtype of 'disorder'.\n\nNote: Adopted subtype of disorder, and injury can occur at the scale of organism down to cellular level." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Albert Goldfain\nSagar Jain" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://groups.google.com/group/ogms-discuss/browse_thread/thread/ca0ad373f27774c5\n\nOGMS call adoption- 16 SEPT 2015\nhttps://docs.google.com/document/d/1iiV1-fTS7BUUSzDw3N_Afx42698YWf54-FOTY2NkAxo/edit" + "val" : "Amanda hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "creation date: 2011-09-20T09:57:44Z\nedited date: 30 SEPT 2015" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "employee" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000008", - "lbl" : "obsolete owns", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000078", + "lbl" : "workplace facility", + "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000732" - } ], - "deprecated" : true + "val" : "Amanda Hicks" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000009", - "lbl" : "obsolete administrates", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000079", + "lbl" : "workplace function", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "a function inhering in a material entity that, if realized, is realized by that material entity being the site where the work of some organization is carried out" + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000733" - } ], - "deprecated" : true + "val" : "Amanda Hicks" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000048", - "lbl" : "obsolete is owned by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000081", + "lbl" : "US census householder role", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A US Census householder role is a human social role that, if realized, is realized by that person being a member of a household and either owning or renting the housing unit in which that household resides and being designated as the householder. If there is only one member of the household who owns or rents the housing unit, that person is designated the householder by default." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Reinach, A. S�mtliche Werke. Texkritische Ausgabe, M�nchen: Philosophia Verlag, 1989, p.189-204." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000735" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.census.gov/cps/about/cpsdef.html\n\nlast accessed on June 30, 2015" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000060", - "lbl" : "obsolete survey data", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000082", + "lbl" : "US Census reference person role", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A US cenus reference person role is a human social role that inheres in a Homo sapiens who is a member of a household and is realized by other persons in the household being recorded in the US census in relation to that person." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alice Nzinga" + "val" : "Amanda Hicks" }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.census.gov/cps/about/cpsdef.html\n\nlast accessed June 30, 2015" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000083", + "lbl" : "obsolete OMB ethnic identity datum", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An ethnic identity datum that is the output of an ethnic identification process that uses OMB terminology for ethnicity or terminology that is mapped the OMB ethnicity terms." + }, + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "Amanda Hicks" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000667" + "val" : "OMB ethnic identity information content entity" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0001025", - "lbl" : "obsolete survey plan specification", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000084", + "lbl" : "enrollment end date", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000085", + "lbl" : "obsolete socio-legal human social role", "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alice Nzinga" + "val" : "A role that concretizes a socio-lega generically dependent continuant" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000701" + "val" : "Amanda Hicks" } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMIABIS_0001035", - "lbl" : "obsolete survey execution", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000086", + "lbl" : "human role within an organization", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A human social role that is created by a deontic declaration performed by an organization." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OBIB_0000710" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "human organizational role" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMO_0001001", - "lbl" : "logical characteristic of object property", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000087", + "lbl" : "employer role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "This is an annotation used on an object property to indicate a logical characterstic beyond what is possible in OWL." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "OBO Operations call" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "http://orcid.org/0000-0001-5208-3432" - } ] + "val" : "a role in human social processes that is realized when the bearer provides a wage or salary in exchange for some labour or services as specified by some declaration" + } } }, { - "id" : "http://purl.obolibrary.org/obo/OMO_0002000", - "lbl" : "defined by construct", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000088", + "lbl" : "age measurement datum", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000089", + "lbl" : "contract", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Links an annotation property to a SPARQL CONSTRUCT query which is meant to provide semantics for a shortcut relation." + "val" : "A document that records a legally binding agreement between two or more parties." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "'part disjoint with' 'defined by construct' \"\"\"\n PREFIX owl: \n PREFIX : 10 tobacco cigerettes a day or the equivalent in other tobacco products." + } } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000066", - "lbl" : "pediatric trauma patient role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000188", + "lbl" : "answer set", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000189", + "lbl" : "question text", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000190", + "lbl" : "option as member of some answer set", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000191", + "lbl" : "residential facility", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A trauma patient role that inheres in a homo sapiens who is under the age of 15 years." + "val" : "A facility that has at least one housing unit as part in which a person or persons live" }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "residential facility" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Emma Norris" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "pediatric trauma patient" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William Hogan" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "The following definition for 'pediatric trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\n\"A trauma patient who is under the age of 15 years.\"" + "val" : "Modified version of definition provided by Human Behaviour Change Project" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000067", - "lbl" : "injured patient role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000192", + "lbl" : "obsolete communication", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A patient role that inheres an organism suffering one or more injuries." + "val" : "A process in which some participant shares some information content entity about some state of that participant with some other participant." }, + "comments" : [ "The term 'participant' in the definition need not refer to a human agent." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "injured patient" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "The following definition for 'injured patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering one or more injuries." - } ] + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000068", - "lbl" : "is administered by", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000069", - "lbl" : "burn patient role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000193", + "lbl" : "obsolete linguistic competence", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A patient role that inheres in an organism suffering a thermal, electrical, chemical or radiation burn." + "val" : "A disposition inhering in a material entity that, if realized, is realized by that material entity’s communicating via some linguistic concretization." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "The following definition for 'burn patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient suffering a thermal, electrical, chemical or radiation burn." + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "burn patient" - } ] + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000070", - "lbl" : "is enrolled in school", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000071", - "lbl" : "is admitted to hospital", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000072", - "lbl" : "physiatrist role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000194", + "lbl" : "obsolete language", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A physician role that is created by training and certification in rehabilitation/physical medicine and that is realized by the provision of or supervising of the provision of rehabilitation or physical therapy to a patient." + "val" : "A disposition inhering in a linguistic community that (i) is a maximal aggregate of communicatively compatible linguistic competences, and (ii) if realized, is realized by any and all realizations of those linguistic competences." }, - "comments" : [ "Definition updated May 5, 2016. Original definitions was, a health care role borne by a human being and realized by training and certification in rehabilitation medicine." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "physiatrist" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "The following definition for 'physiatrist' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA physician with training and certification in rehabilitation/physical medicine." - } ] + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000073", - "lbl" : "trauma patient role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000195", + "lbl" : "linguistic community", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A patient role that inheres in an organism with some non-superficial traumatic injury. The role is realized by admision to a hospital, transfer from one hospital to another for the purpose of trauma care, or has death as a result of the traumatic injury." + "val" : "A maximal aggregate of material entities such that each member bears a linguistic competence for the same language." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "trauma patient" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "The following definition for 'trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.\n\nA patient sustaining an injury who has been admitted to the hospital, transferred from one hospital to another for the purpose of trauma care, or has died as a result of the traumatic injury." + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000074", - "lbl" : "housing unit", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000196", + "lbl" : "obsolete expression of preferred language", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A material entity that has as parts one or more sites large enough to contain humans, has as part one or more material entities that separates it from other sites, and bears a residence function." + "val" : "A communication in which some participant states a preference for some communicative process to be in a certain language, and that has a concretization of a preferred language information content entity as its specified output." }, - "comments" : [ "Housing units are individuated by their residence functions." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/ufbmi/OMRSE/wiki/Housing-unit-and-Household" - } ] + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000075", - "lbl" : "residence function", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000197", + "lbl" : "obsolete preferred language information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A function that inheres in a material entity and, if realized, is realized by protecting persons and their possessions from weather and by some person or group of persons habitually sleeping in at least one site that is contained by that material entity." + "val" : "An information content entity that (i) is about some person, some language, and some linguistic competence; and (ii) conveys the language with which that person prefers to communicate within some given context." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" - } ] + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000076", - "lbl" : "household", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000198", + "lbl" : "information content entity-request process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A human or collection of humans that occupies a housing unit by storing their possessions there and habitually sleeping there thereby participating in the realization of that housing unit's residence function." + "val" : "a communication in which some participant requests of some other participant an information content entity about some portion of reality" }, - "comments" : [ "Note in OMRSE it is the housing unit, not the people living there, that are the bearers of a \"residence function\". Note the distinction between being a residence and a resident.", "Note that it is not possible in OWL 2, at least that we have yet found, to say that the housing unit in which the process occurs is the same one that is the bearer of the residence function (that the process realizes)." ], + "comments" : [ "As with the parent class, 'participant' in the definition need not refer to a human agent.", "The medium and grammatical form are irrelevant. For example, the request may be written or spoken, and while it may be in the form of a question, it need not be." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000077", - "lbl" : "job role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000199", + "lbl" : "information content entity request about ethnic identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role in human social processes that, if realized, is realized when the bearer provides labor or services in exchange for a wage or salary as specified by some deontic declaration." + "val" : "an information content entity-request process in which some participant requests of some other participant an information content entity that indicates the ethnic identity of that other participant" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda hicks" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "employee" + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000078", - "lbl" : "workplace facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000200", + "lbl" : "information content entity request about racial identity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "an information content entity-request process in which some participant requests of some other participant an information content entity that indicates the racial identity of that other participant" + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000079", - "lbl" : "workplace function", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000201", + "lbl" : "admission process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a function inhering in a material entity that, if realized, is realized by that material entity being the site where the work of some organization is carried out" + "val" : "A deontic document act in which a patient is registered with a health care provider for the purpose of receiving care in an inpatient encounter." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", @@ -12070,1204 +11000,1471 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000080", - "lbl" : "U.S. Census PUMS serial number", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "The PUMS serial number assigned to a housing unit, which is only unique within each state, and which explicitly links the housing unit record with person records in PUMS data." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000081", - "lbl" : "US census householder role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000202", + "lbl" : "cancer summary staging", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A US Census householder role is a human social role that, if realized, is realized by that person being a member of a household and either owning or renting the housing unit in which that household resides and being designated as the householder. If there is only one member of the household who owns or rents the housing unit, that person is designated the householder by default." + "val" : "A planned process of determining the extent to which a cancer disease has developed by growing and spreading throughout an organism." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "cancer summary staging" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The cancer summary staging performed on patient John Doe's clinical picture." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.census.gov/cps/about/cpsdef.html\n\nlast accessed on June 30, 2015" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "tumor summary staging" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000082", - "lbl" : "US Census reference person role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000203", + "lbl" : "cancer summary staging code", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A US cenus reference person role is a human social role that inheres in a Homo sapiens who is a member of a household and is realized by other persons in the household being recorded in the US census in relation to that person." + "val" : "An information content entity that is the specified output of cancer summary staging." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "cancer summary staging code" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The cancer summary staging code that is the outcome of the cancer summary staging performed on patient John Doe's clinical picture." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.census.gov/cps/about/cpsdef.html\n\nlast accessed June 30, 2015" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "tumor summary staging code" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000083", - "lbl" : "obsolete OMB ethnic identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000204", + "lbl" : "social identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ethnic identity datum that is the output of an ethnic identification process that uses OMB terminology for ethnicity or terminology that is mapped the OMB ethnicity terms." + "val" : "An information content entity that is intended to be a truthful statement about some person and whether that person identifies as some particular aspect of social identity—such as a gender, an ethnicity, a race, or a sexual orientation—where the sense of identifying may correspond to either (i) an aspect of one’s cognitive representation of oneself, (ii) how one prefers to be regarded by others within some social context, or (iii) how one chooses to present oneself to others within some social context." }, + "comments" : [ "We include (i)-(iii) to acknowledge that there are different senses of \"identify\" that are relevant here, and that we may not always be sure which sense the person concretizing the social identity information content entity intended. While (i) concerns how one thinks of oneself, (ii) and (iii) are more focused on one's interactions with others. Importantly, some choose not to share with others how they identify in the sense of (i). For example, one can consider oneself to be some certain gender without either wanting others to know or choosing to present oneself in a corresponding way. We distinguish (ii) and (iii) because one can prefer to be regarded some certain way without attempting to present oneself in any corresponding way." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB ethnic identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000084", - "lbl" : "enrollment end date", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000085", - "lbl" : "obsolete socio-legal human social role", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "A role that concretizes a socio-lega generically dependent continuant" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000086", - "lbl" : "human role within an organization", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000205", + "lbl" : "ethnic identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A human social role that is created by a deontic declaration performed by an organization." + "val" : "A social identity information content entity that is about whether some person identifies as some ethnicity." }, + "comments" : [ "Ethnicity is separate from but related to racial identity. It refers more to identifying with a particular culture than with individuals similar in physical appearance. It includes things like Hispanic ethnicity (which spans many nations) and national cultural identities like Irish and ethnic groups within nations such as Catalan and Armenian." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "human organizational role" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000087", - "lbl" : "employer role", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "a role in human social processes that is realized when the bearer provides a wage or salary in exchange for some labour or services as specified by some declaration" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000088", - "lbl" : "age measurement datum", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000089", - "lbl" : "contract", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000206", + "lbl" : "OMB ethnic identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A document that records a legally binding agreement between two or more parties." + "val" : "An ethnic identity information content entity that uses OMB terminology for ethnicity or terminology that is strictly mapped onto the OMB ethnicity terms." }, + "comments" : [ "OMB dichotomizes ethnicity into Hispanic or Latino and Not Hispanic or Latino, and ignores all other forms of ethnicity." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A contract is a document that is the specified output of a legally binding document act and records a legally binding agreement between two or more parties." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000090", - "lbl" : "indemnity contract", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000207", + "lbl" : "OMB Hispanic or Latino identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A contract by which one party secures the other against pecuniary loss by payment of a sum of money if a specified event occurs." + "val" : "An OMB ethnic identity information content entity that is about some person's identifying as Hispanic or Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." }, + "comments" : [ "It comprehends people of Portuguese culture or origin in Brazil." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000091", - "lbl" : "insurance policy", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000208", + "lbl" : "OMB not Hispanic or Latino identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An indemnity contract that distributes risk among a group of people" + "val" : "An OMB ethnic identity information content entity that is about some person's identifying as neither Hispanic nor Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000092", - "lbl" : "insured party role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000209", + "lbl" : "gender identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A role that inheres in an organism that is able to receive benefits from an insurance policy. The role, if realized, is realized by receiving benefits that are covered by the insurance policy." + "val" : "A social identity information content entity that is about whether some person identifies as some gender." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000093", - "lbl" : "insurance organization", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000210", + "lbl" : "female gender identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An organization that secures a group of people against pecuniary loss by payment of a sum of money if a a specified event occurs." + "val" : "A gender identity information content entity that is about some person's identifying as female in gender." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000094", - "lbl" : "policy holder role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000211", + "lbl" : "male gender identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An insured party role that inheres in a person who participates in the creation of the insurance contract and is eligible to receive benefits as specified by the insurance contract." + "val" : "A gender identity information content entity that is about some person's identifying as male in gender." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000095", - "lbl" : "payer role", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000096", - "lbl" : "party to an insurance policy", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000097", - "lbl" : "enrollment start date", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000098", - "lbl" : "obsolete racial identity datum", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A racial identity is an information content entity that is the output of some racial identitification process and is intended to be a truthful statement about the genetic or cultural race of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "racial identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000099", - "lbl" : "racial identification process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000100", - "lbl" : "obsolete ethnic identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000212", + "lbl" : "non-binary identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An ethnic identity datum is an information content entity that is the output of some ethnic identitification process and is intended to be a truthful statement about the cultural or national heritage of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." + "val" : "A gender identity information content entity that is about some person's identifying as non-binary in gender." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "ethnic identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000101", - "lbl" : "ethnic identification process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000102", - "lbl" : "health care facility", - "type" : "CLASS", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "A facility bearing the function to provide healthcare and that is administered by a health care organization for the purpose of providing health care to a patient or patient population." + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000103", - "lbl" : "US Census unemployed role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000213", + "lbl" : "racial identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A human social role that inheres in a human who is legally eligible to work, is conferred by the U.S. Census Bureau, and is realized by the bearer not working and either making active efforts to find employment in the four weeks prior to the reference week or waiting to be recalled from temporary layoff." + "val" : "A social identity information content entity that is about whether some person identifies as some race." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000104", - "lbl" : "hospice facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000214", + "lbl" : "OMB racial identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care facility that bears a function to provide healthcare to the sick or terminally ill" + "val" : "A racial identity information content entity that uses OMB terminology and definitions for race or terminology that is strictly mapped onto the OMB race terms." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000105", - "lbl" : "skilled nursing facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000215", + "lbl" : "OMB American Indian or Alaska Native identity information content entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An OMB racial identity information content entity that is about some person's identifying as American Indian or Alaska Native, which is intended to mean having origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." + }, + "comments" : [ "This definition corresponds to that used by OMB. It is worth noting that the OMB definition from which this one is derived is problematic, in that it implies that one's race cannot be Native American or Alaskan Native unless one maintains tribal affiliations or community attachment." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000106", - "lbl" : "rehabilitation facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000216", + "lbl" : "OMB Asian identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A facility to assist in physical or addiction recovery" + "val" : "An OMB racial identity information content entity that is about some person's identifying as Asian, which is intended to mean having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000107", - "lbl" : "nursing home facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000217", + "lbl" : "OMB black or African American identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A facility that is run by a nursing home organization and is the bearer of a nursing home function." + "val" : "An OMB racial identity information content entity that is about some person's identifying as black or African American which is intended to mean having origins in any of the black racial groups of Africa." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000108", - "lbl" : "residential health care facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000218", + "lbl" : "OMB Native Hawaiian or other Pacific Islander identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A community living health care facility that provides health care services in a home-like setting" + "val" : "An OMB racial identity information content entity that is about some person's identifying as Native Hawaiian or other Pacific Islander, which is intended to mean having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000109", - "lbl" : "overnight dialysis facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000219", + "lbl" : "OMB white identity information content entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An OMB racial identity information content entity that is about some person's identifying as white which is intended to mean having origins in any of the original peoples of Europe, the Middle East, or North Africa." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000110", - "lbl" : "outpatient clinic facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000220", + "lbl" : "sexual orientation identity information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care facility that bears a function to provide low intensity healthcare services to patients on a short-term basis, with patients leaving on the same date as arriving (i.e., without them staying overnight)" + "val" : "A social identity information content entity that is about whether some person identifies as having some sexual orientation." }, - "comments" : [ "Broadened from treatment to healthcare services generally. \"Low intensity\" is not defined at the moment, but is needed to differentiate from same-day surgery centers or observation stays in hospitals that last <24 hours. The idea is that few invasive procedures are performed, and the ones that are invasive are not typically much worse than a blood draw. Maybe bone marrow biopsy is as aggressive as it gets. I wonder if hematologists do that on an outpatient basis." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Amanda Hicks" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000111", - "lbl" : "physician office facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000221", + "lbl" : "residence ZIP code information content entity", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "An information content entity that is about some geographical region, in which a postal delivery route denoted by a particular ZIP code is realized, and that is the specified output of a disclosure of residence." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000112", - "lbl" : "ambulatory surgery facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000222", + "lbl" : "debt obligation", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A directive information entity that prescribes that something will be transferred from some human or organization that is the bearer of a duty holder role to another human or organization that is the bearer of a claimant role." + }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "debt obligation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Three Arrows Capital declared bankruptcy on July 1, 2022 after defaulting on a $665 million debt obligation owed to Voyager Digital." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000113", - "lbl" : "urgent care facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000223", + "lbl" : "disclosure of residence", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A social act that creates an information content entity that is about some geographical region in which a human being dwells." + }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000114", - "lbl" : "emergency department facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000224", + "lbl" : "electronic health record data set", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care facility that bears a function to provide emergency healthcare services and the acute care of patients who present without prior appointment, having arrived either by their own means or by ambulance" + "val" : "A data set whose members are obtained from one or more electronic health records." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "EHR data set" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Alan Ruttenberg" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Adapted from Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brocchausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000115", - "lbl" : "urgent care function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000116", - "lbl" : "ambulatory surgery function", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000225", + "lbl" : "health care claim data set", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A data set whose members are the specified output of some process of adjudicating health care insurance claims (and whose inputs are at least partly some members of a health care billing data set)." + }, + "comments" : [ "It covers prescription claims because pharmacies bill insurance companies for patients’ prescriptions via submitting insurance claims.", "The insurance claim is submitted to the insurance company by either the patient or the provider. It is not necessarily always the provider, although in the United States, it typically is.", "The outcome of the adjudication of a claim in the claims dataset could be favorable or unfavorable for the healthcare provider, the patient, or both. The idea is just that they’ve been adjudicated, one way or the other (or anything in between if that’s a possibility).", "The reason we say billing data are only part of the input is because we are not conflating the insurance claim with the bill. It is our understanding that the provider’s bill of services is either part of the claim or “attached” to it in some manner, but doesn’t constitute the entire claim itself.", "The sources of these data are held by insurers or other health plan providers." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brocchausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000117", - "lbl" : "hospice function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000118", - "lbl" : "emergency department function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000119", - "lbl" : "physician office function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000120", - "lbl" : "outpatient clinic function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000121", - "lbl" : "overnight dialysis function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000122", - "lbl" : "rehabilitation function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000123", - "lbl" : "skilled nursing function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000124", - "lbl" : "obsolete residential function", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000226", + "lbl" : "health care billing data set", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A data set whose members are obtained from billing-related data sources that (i) are generated by a health care organization as a result of internal administrative processes, and (ii) are about services rendered or materials used during some health care encounter." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "residence function (OMRSE:00000075)" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000125", - "lbl" : "nursing home function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000126", - "lbl" : "patient discharge", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000227", + "lbl" : "health care administrative process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic document act that concludes an inpatient encounter." + "val" : "A planned process (i) that is neither a health care process nor an ancillary health care process, and (ii) in which some employee of a health care organization manages, or helps to manage, the performance of tasks that realize the functions of that organization." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Recording data in an EHR. Financial tasks for a healthcare organization. Scheduling shifts for health care workers." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "discharge process" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000127", - "lbl" : "obsolete hispanic or latino identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000228", + "lbl" : "principal diagnosis-assignment process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB ethnic identity datum that indicates the person identified is of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." + "val" : "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB Hispanic or Latino identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000128", - "lbl" : "obsolete not hispanic or latino identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000229", + "lbl" : "secondary diagnosis-assignment process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB ethnic identity datum that indicates the person identified is not of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." + "val" : "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about an underlying condition that is distinct from the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB not Hispanic or Latino identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000129", - "lbl" : "US physician assistant role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000230", + "lbl" : "county smoking survey plan specification", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A human health care provider role that inheres in a human being that is created by state licensing and that is realized by taking patient histories, performing physical exams, diagnosing illnesses, developing treatment plans, ordering lab tests, prescribing medications, counselling and educating patients, suturing wounds, and assisting in surgery under the supervision of a physician or a surgeon." - } + "val" : "A survey plan specification that aims to collect information about the smoking behavior or lack thereof of a population on a county level. Concretization of a smoking survey plan that is stratified by county." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The Alachua county smoking survey plan specification." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jiang Bian" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000130", - "lbl" : "anesthesiologist role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000231", + "lbl" : "county smoking survey execution", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A physician role that inheres a human being and, if it is realized, is realized either by administering medication for the temporary general or local suppression of sensory or motor nerve function during some health care encounter or by making decisions independently of a supervising physician regarding the adminstration of such medication." - } + "val" : "A survey execution that realizes the concretization of a smoking survey plan specification that is stratified by county." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The Alachua county smoking survey execution." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jiang Bian" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000131", - "lbl" : "OMB racial identification process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000132", - "lbl" : "obsolete identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000232", + "lbl" : "county smoking survey data", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An identity datum is an information content entity that is the output of some identitification process and is intended to be a truthful statement about a person's social identity. Unlike data items they are not necessilary contributed or acquired by a reliable method." + "val" : "Survey data that is the specified output of a county smoking survey execution." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "social identity information content entity" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The Alachua county smoking survey data." }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Hansi Zhang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jiang Bian" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000133", - "lbl" : "obsolete gender identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000233", + "lbl" : "smoking rate calculation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gender identity is an information content entity that is the output of some gender identitification process and is intended to be a truthful statement about a person's subjective sense of their gender. Unlike data items they are not necessilary contributed or acquired by a reliable method." + "val" : "A data transformation that has data about the smoking status of a population as its specified input and a percentage or ratio of smokers in that population as a specified output." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "gender identity information content entity" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Calculating the Alachua County smoking rate from Alachua County smoking data." }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000134", - "lbl" : "identification process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000234", + "lbl" : "county smoking rate data", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A data item that is the specified output of a smoking rate calculation that has data about smoking behavior or lack there of on a county level." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The Alachua County smoking rate." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000135", - "lbl" : "gender identification process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000136", - "lbl" : "date", - "type" : "PROPERTY", - "meta" : { - "comments" : [ "The only valid string values for this property are ISO 8601 formatted date strings in extended form. It is allowable specify only the year, e.g. '2016' but only when the 1D temporal region references the entire year. Ditto for month, e.g. 2016-04 is acceptable but only if it references the entire interval of that month." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000137", - "lbl" : "time of day", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000235", + "lbl" : "money", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A debt obligation between two parties that has part a scalar value specification and whose concretizations indicate that their bearers can be used in a financial transaction or payment of debt, or as a measure of the value of some entity in a financial valuation process or prospective financial valuation process." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "time" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "money" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Todd does not have enough money to buy more plants at the horticultural club's poinsettia sale." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000138", - "lbl" : "obsolete female gender identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000236", + "lbl" : "currency", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a gender identity datum resulting from a gender identification process in which ‘female’ is selected based on the participant's subjective sense of gender" + "val" : "A material entity that is the bearer of a concretization of money and is created by some governmental organization or on behalf of some governmental organization that has authorized its creation." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "currency" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "US currency is an accepted form of legal tender, not just in the United States, but in many countries around the world, such as El Salvador." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "female gender identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000139", - "lbl" : "surgeon role", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000140", - "lbl" : "neurosurgeon role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000237", + "lbl" : "exchange of ownership", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A surgeon role realized by its bearer using performing neurosurgery." - } + "val" : "A planned process whereby one agent (or active participant) or a group of agents transfer ownership of some property to another agent (or active participant) or group of agents in the process, who in return transfer ownership of some their property to the first agent (or active participant)." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "exchange of ownership" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Tom exchanged ownership of his computer for Tina's scooter." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "barter" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000141", - "lbl" : "obsolete male gender identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000238", + "lbl" : "financial transaction", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a gender identity datum resulting from a gender identification process in which ‘male’ is selected based on the participant's subjective sense of gender" + "val" : "A planned process whereby one participant partly or completely fulfills an obligation to another participant by transferring ownership of some other debt obligation, which is typically money." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "financial transaction" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Apple acquired semiconductors from Samsung in a financial transaction yesterday." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "monetary transaction" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "male gender identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000142", - "lbl" : "human traveling information", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000239", + "lbl" : "payment of debt", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is about human travel." + "val" : "A planned process whereby ownership of some entity of value is transferred by one participant to another to fulfill some obligation, on their behalf, after some service is performed or the ownership of some entity is exchanged." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://github.com/ufbmi/OMRSE/issues/79" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "payment of debt" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "I made a debt payment with my credit card company yesterday and no longer owe them money." }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000143", - "lbl" : "household identifier", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000240", + "lbl" : "financial valuation process", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A planned process that has as specified output some scalar measurement datum that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some other material entity." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "A symbol that denotes a specific household" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "financial valuation process" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The financial valuation of Ravi's car today determined that the car is worth $2000." }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000144", - "lbl" : "family identifier", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000241", + "lbl" : "prospective financial valuation process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A symbol that denotes a family." + "val" : "A planned process that has as specified output some predicted value that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some material entity at some point in the future." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "prospective financial valuation process" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The prospective valuation of my company's stock indicates strong optimism for our financial growth over the next few years." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000145", - "lbl" : "obsolete self-identity data item", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000242", + "lbl" : "intimate partnership", "type" : "CLASS", "meta" : { "definition" : { - "val" : "an identity datum that has been asserted by the person whom it is about" + "val" : "Relational quality inhering in persons by virtue of being each other’s spouse, boyfriend/girlfriend, dating partner, or ongoing sexual partner." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" - } ], - "deprecated" : true + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000146", - "lbl" : "employment process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000243", + "lbl" : "abusive behavior", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process in which the bearer of an employer role provides wages or salary to the bearer of an employee roll in fullfillment of the arrangements specified in some declaration" - } + "val" : "Behavior that is cruel, violent, demeaning, or invasive." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000147", - "lbl" : "pediatric surgeon role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000244", + "lbl" : "psychologically abusive behavior", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A surgeon role borne by a human being and that, if realized, is realized by its bearer using operative manual and instrumental techniques on preadult patients to investigate and/or treat a pathological condition such as disease or injury, to help improve bodily function or appearance or to repair unwanted ruptured areas." + "val" : "Abusive behavior in which the aggressor does or attempts to do the following: mentally or emotionally harm or exert control over another." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000148", - "lbl" : "adult foster home facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000245", + "lbl" : "physically abusive behavior", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a facility that is run by an adult foster home organization and is the bearer of an adult foster home organization" + "val" : "Abusive behavior in which the aggressor does or attempts to do the following: harm, restrain, or coerce another through physical force." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000149", - "lbl" : "adult foster home function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000150", - "lbl" : "community living health care facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000246", + "lbl" : "sexually abusive behavior", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a health care facility that also bears a residence function and thus one in which the patients are also residents of the facility" - } + "val" : "Abusive behavior in which the aggressor does or attempts to do the following: force or coerce another to participate in a sexual act to which the latter has not freely given consent." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000151", - "lbl" : "registered nurse role", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000152", - "lbl" : "skilled nursing encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000153", - "lbl" : "assistive care encounter", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000249", + "lbl" : "birth attendant role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "They include assistance with activities of daily living, assistance with instrumental activities of daily living, medication assistance, and health support\n\nhttp://ahca.myflorida.com/Medicaid/acs/index.shtml" + "val" : "A health care provider role that is realized in maintaining the health of a human being during their pregnancy and both them and the neonate during labor, delivery, and postpartum." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "skilled birth attendant role" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "https://orcid.org/0000-0001-6595-0902" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000154", - "lbl" : "assistance with activities of daily living care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000155", - "lbl" : "assistance with instrumental activities of daily living encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000156", - "lbl" : "medication assistance care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000157", - "lbl" : "assisted living facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000250", + "lbl" : "linguistic competence information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A facility that is run by an assisted living facility organization and is the bearer of an assisted living facility function." - } + "val" : "An information content entity that conveys that a particular person has a linguistic competence for a particular language" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Barry Smith" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jobst Landgrebe" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000158", - "lbl" : "assisted living function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000159", - "lbl" : "post-acute health care encounter", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000251", + "lbl" : "primary language information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "temporally located after some acute care encounter\nSomehow involves skilled nursing encounters" - } + "val" : "A linguistic competence information content entity that conveys the language is the one for which the person has their most proficient linguistic competence." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Barry Smith" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jobst Landgrebe" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000160", - "lbl" : "acute care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000161", - "lbl" : "leaving a health care facility after receiving care", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000252", + "lbl" : "language-at-home information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A process (1) where the active participant, who at the beginning of the process is located in a healthcare facility, exits the facility and no longer stands in a \"located in\" relationship to the facility and (2) is immediately preceded by a healthcare encounter in which the active participant also participated." + "val" : "A linguistic competence information content entity that conveys the person uses the language at home." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Barry Smith" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jobst Landgrebe" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000162", - "lbl" : "obsolete medical advice", - "type" : "CLASS", - "meta" : { - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000163", - "lbl" : "response to a question asking process", - "type" : "CLASS", - "meta" : { - "comments" : [ "Note that not all responses to a question asking process are answers. For example, a refusal to answer is not an answer. A refusal to answer is also not a specified output of the question asking process since it does not acheive the objective of asking the question, which is to get an answer." ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000164", - "lbl" : "home health care organization", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000165", - "lbl" : "home health care function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000166", - "lbl" : "home health care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000167", - "lbl" : "provides service", - "type" : "PROPERTY" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000168", - "lbl" : "obsolete questions asking process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000253", + "lbl" : "religious gathering", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A social act or aggregate of social acts that include some worship, prayer, or proselytizing." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OMRSE_00000198" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000169", - "lbl" : "palliative function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000170", - "lbl" : "palliative care encounter", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000171", - "lbl" : "hospice organization", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000172", - "lbl" : "health care function", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000173", - "lbl" : "obsolete material information bearer of question text plus answer set", - "type" : "CLASS", - "meta" : { - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000174", - "lbl" : "refusal to answer datum", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000175", - "lbl" : "response to an identity question asking process", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000176", - "lbl" : "obsolete identity question asking process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000254", + "lbl" : "hospital bed capacity data item", "type" : "CLASS", "meta" : { - "deprecated" : true + "definition" : { + "val" : "A count of the number of patients that some hospital facility has the capacity for." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000177", - "lbl" : "obsolete ethnic identity question asking process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000255", + "lbl" : "proportion of population in an elementary occupation", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A data item that is the output of some data transformation that takes as input the number of individuals in a population who are occupation holders and has as output the proportion of those individuals who are classified by the European Skills, Competences, Qualifications and Occupations as door-to-door sales worker, news or street vendors; building cleaning workers; pressers, textile, garment, or related materials; septic tank servicers or sewer pipe cleaners; farmworkers or laborers, crop, nursery, or greenhouse; farmworkers, farm, ranch, or aquacultural animal; agricultural workers, all other; landscaping or groundskeeping workers; grounds maintenance workers, all other; forest or conservation workers; logging workers, all other; fishing or hunting workers; helpers--extraction workers; extraction workers, all other; helpers, construction trades; rail-track laying or maintenance equipment operators; construction laborers; helpers--production workers; production workers, all other; laborers or material movers; refuse or recyclable material collectors; couriers or messengers; material moving workers, all other; aircraft cargo handling supervisors; first-line supervisors of helpers, laborer, or material mover, hand; first-line supervisors of transportation worker, all other; tank car, truck, or ship loaders; cooks, fast food; cooks, short order; food preparation workers; dining room or cafeteria attendants or bartender helpers; dishwashers; food preparation or serving related workers, all other; personal care or service workers, all other; baggage porters or bellhops; maintenance or repair workers, general; installation, maintenance, or repair workers, all other; meter readers, utilities; coin, vending, or amusement machine servicers or repairers; motion picture projectionists; ushers, lobby attendants, or ticket takers; amusement or recreation attendants; locker room, coatroom, or dressing room attendants; and parking attendants." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OMRSE_00000199" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Currently, the Occupation Ontology (OccO ) only represents occupations as they are defined by O*NET. We define this class extentionally according to the O*NET-defined occupations that map to occupations in ESCO that are classified as elementary occupations." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000178", - "lbl" : "obsolete race identity question asking process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000256", + "lbl" : "Medicaid policy holder role", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A policy holder role that inheres in a person who participates in the creation of an insurance policy with a US state Medicaid agency." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/OMRSE_00000200" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000179", - "lbl" : "answer to identity question", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000180", - "lbl" : "obsolete American Indian or Alaska Native identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000257", + "lbl" : "insurance company", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." + "val" : "An insurance organization that is privately owned and that participates in the creation of insurance policies in return for some money from the policy holder." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB American Indian or Alaska Native identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000181", - "lbl" : "obsolete Asian identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000258", + "lbl" : "private insurance policy holder role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." + "val" : "A policy holder role that inheres in a person who participates in the creation of an insurance policy with an insurance company." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB Asian identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000182", - "lbl" : "obsolete black or African American identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000259", + "lbl" : "US state Medicaid agency", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the black racial groups of Africa." + "val" : "A government organization that administers a given US state's Medicaid program by participating in the creation of insurance policies with eligible people and by participating in some payment of debt for a specified aggregate of health care encounters, specified processes (e.g, treatments, diagnostic tests) that are part of those encounters, and material entities used or prescribed during the encounters (e.g., medicine, prosthetics, glasses)." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB black or African American identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000183", - "lbl" : "obsolete Native Hawaiian or other Pacific Islander identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000262", + "lbl" : "categorization scheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." + "val" : "Information content entity that characterizes some aggregate of entities as partitioned into distinct subgroups, thereby demarcating them as categories." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB Native Hawaiian or other Pacific Islander identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000184", - "lbl" : "obsolete white identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000265", + "lbl" : "social categorization scheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Europe, the Middle East, or North Africa." + "val" : "Categorization scheme that divides humans into groups considered by themselves or others as distinct on the basis of assumed common characteristics." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB white identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000185", - "lbl" : "obsolete OMB racial identity datum", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000267", + "lbl" : "social category", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms." + "val" : "Collection of humans demarcated by some social categorization scheme." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "OMB racial identity information content entity" - } ], - "deprecated" : true - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000186", - "lbl" : "heavy smoker role", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A role that inheres in an organism and is realized by habitually smoking 10 or more tobacco cigerettes a day or the equivalent in other tobacco products." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000187", - "lbl" : "light smoker role", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A role that inheres in an organism and is realized by habitually smoking 1>10 tobacco cigerettes a day or the equivalent in other tobacco products." - } + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000188", - "lbl" : "answer set", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000189", - "lbl" : "question text", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000190", - "lbl" : "option as member of some answer set", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000191", - "lbl" : "residential facility", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000268", + "lbl" : "racial categorization scheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A facility that has at least one housing unit as part in which a person or persons live" + "val" : "Social categorization scheme based on characteristics assumed to be biologically hereditary and to result in part from common locality of ancestors." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "residential facility" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Emma Norris" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "Modified version of definition provided by Human Behaviour Change Project" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000192", - "lbl" : "obsolete communication", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000269", + "lbl" : "racial category", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A process in which some participant shares some information content entity about some state of that participant with some other participant." + "val" : "Social category demarcated by some racial categorization scheme." }, - "comments" : [ "The term 'participant' in the definition need not refer to a human agent." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000193", - "lbl" : "obsolete linguistic competence", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000270", + "lbl" : "ethnic categorization scheme", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A disposition inhering in a material entity that, if realized, is realized by that material entity’s communicating via some linguistic concretization." + "val" : "Social categorization scheme based on characteristics that are primarily cultural—such as ancestry, history, national or tribal background, cultural attachments or traditions, past linguistic heritage, religious affiliations, caste, or claimed kinship." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000194", - "lbl" : "obsolete language", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000271", + "lbl" : "ethnic category", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A disposition inhering in a linguistic community that (i) is a maximal aggregate of communicatively compatible linguistic competences, and (ii) if realized, is realized by any and all realizations of those linguistic competences." + "val" : "Social category demarcated by some ethnic categorization scheme." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" - } ], - "deprecated" : true + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000195", - "lbl" : "linguistic community", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000274", + "lbl" : "personal data disclosure", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A maximal aggregate of material entities such that each member bears a linguistic competence for the same language." + "val" : "Communication in which a person reports some data items about either that person or another person." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" @@ -13277,41 +12474,34 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000196", - "lbl" : "obsolete expression of preferred language", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000277", + "lbl" : "subjective representation", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A communication in which some participant states a preference for some communicative process to be in a certain language, and that has a concretization of a preferred language information content entity as its specified output." + "val" : "Cognitive representation in which the representation’s bearer is represented as being its bearer." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000197", - "lbl" : "obsolete preferred language information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000278", + "lbl" : "social identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that (i) is about some person, some language, and some linguistic competence; and (ii) conveys the language with which that person prefers to communicate within some given context." + "val" : "Subjective representation of its bearer as being a member of some social category." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", @@ -13319,2681 +12509,2635 @@ }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" - } ], - "deprecated" : true + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000198", - "lbl" : "information content entity-request process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000279", + "lbl" : "racial identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "a communication in which some participant requests of some other participant an information content entity about some portion of reality" + "val" : "Social identity for which the category is a racial category." }, - "comments" : [ "As with the parent class, 'participant' in the definition need not refer to a human agent.", "The medium and grammatical form are irrelevant. For example, the request may be written or spoken, and while it may be in the form of a question, it need not be." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000199", - "lbl" : "information content entity request about ethnic identity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000281", + "lbl" : "ethnic identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "an information content entity-request process in which some participant requests of some other participant an information content entity that indicates the ethnic identity of that other participant" + "val" : "Social identity for which the category is an ethnic category." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000200", - "lbl" : "information content entity request about racial identity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000282", + "lbl" : "behavioral identity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "an information content entity-request process in which some participant requests of some other participant an information content entity that indicates the racial identity of that other participant" + "val" : "Social identity for which the category is also a behaviorally distinct group defined by its members degree of participation in some type of behavior." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000201", - "lbl" : "admission process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000284", + "lbl" : "occupation disposition", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A deontic document act in which a patient is registered with a health care provider for the purpose of receiving care in an inpatient encounter." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Amanda Hicks" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000202", - "lbl" : "cancer summary staging", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A planned process of determining the extent to which a cancer disease has developed by growing and spreading throughout an organism." + "val" : "A disposition that, if realized, is realized when the bearer intends to, and does, exercise abilities and skills in pursuit of obtaining or maintaining an job role." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "cancer summary staging" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The cancer summary staging performed on patient John Doe's clinical picture." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "tumor summary staging" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000203", - "lbl" : "cancer summary staging code", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An information content entity that is the specified output of cancer summary staging." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "cancer summary staging code" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The cancer summary staging code that is the outcome of the cancer summary staging performed on patient John Doe's clinical picture." + "val" : "Matthew Diller" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Damion Dooley" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "tumor summary staging code" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000204", - "lbl" : "social identity information content entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An information content entity that is intended to be a truthful statement about some person and whether that person identifies as some particular aspect of social identity—such as a gender, an ethnicity, a race, or a sexual orientation—where the sense of identifying may correspond to either (i) an aspect of one’s cognitive representation of oneself, (ii) how one prefers to be regarded by others within some social context, or (iii) how one chooses to present oneself to others within some social context." - }, - "comments" : [ "We include (i)-(iii) to acknowledge that there are different senses of \"identify\" that are relevant here, and that we may not always be sure which sense the person concretizing the social identity information content entity intended. While (i) concerns how one thinks of oneself, (ii) and (iii) are more focused on one's interactions with others. Importantly, some choose not to share with others how they identify in the sense of (i). For example, one can consider oneself to be some certain gender without either wanting others to know or choosing to present oneself in a corresponding way. We distinguish (ii) and (iii) because one can prefer to be regarded some certain way without attempting to present oneself in any corresponding way." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Jie Zheng" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "val" : "John Beverley" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "John W. Judkins" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "Sam Smith" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "William D. Duncan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Yongqun He" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000205", - "lbl" : "ethnic identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000285", + "lbl" : "occupation activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social identity information content entity that is about whether some person identifies as some ethnicity." + "val" : "A process in which an occupation holder participates that realizes either an occupation disposition or job role." }, - "comments" : [ "Ethnicity is separate from but related to racial identity. It refers more to identifying with a particular culture than with individuals similar in physical appearance. It includes things like Hispanic ethnicity (which spans many nations) and national cultural identities like Irish and ethnic groups within nations such as Catalan and Armenian." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "occupation process" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Damion Dooley" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "Eric Merrell" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "Jie Zheng" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000206", - "lbl" : "OMB ethnic identity information content entity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "An ethnic identity information content entity that uses OMB terminology for ethnicity or terminology that is strictly mapped onto the OMB ethnicity terms." - }, - "comments" : [ "OMB dichotomizes ethnicity into Hispanic or Latino and Not Hispanic or Latino, and ignores all other forms of ethnicity." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "John Beverley" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "val" : "John W. Judkins" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "val" : "Sam Smith" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "William D. Duncan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "William R. Hogan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "val" : "Yongqun He" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000207", - "lbl" : "OMB Hispanic or Latino identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000286", + "lbl" : "U.S. veteran role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB ethnic identity information content entity that is about some person's identifying as Hispanic or Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." + "val" : "A human role within an organization that inheres in a person who has served in a branch of the U.S. military, is not currently serving in the U.S. military, and the person's service ended in accordance to conditions defined by the U.S. government." }, - "comments" : [ "It comprehends people of Portuguese culture or origin in Brazil." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "38 U.S.C. §101(2), as well as “Determining Veteran Status” by the U.S. Department of Veterans Affairs (VA) Office of Small and Disadvantaged Business Utilization (OSDBU): https://www.va.gov/OSDBU/docs/Determining-Veteran-Status.pdf." }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "William D. Duncan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000208", - "lbl" : "OMB not Hispanic or Latino identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000500", + "lbl" : "job role data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB ethnic identity information content entity that is about some person's identifying as neither Hispanic nor Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." + "val" : "A data item that is about a person's job role and/or its realization." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Can be about any aspect of employment, such as salary, work location, or employer." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "employment data item" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "val" : "Chris Stoeckert" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "S. Clint. Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000209", - "lbl" : "gender identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000501", + "lbl" : "income data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000502", + "lbl" : "government assistance health care plan data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000503", + "lbl" : "health care plan data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000504", + "lbl" : "government assistance income data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000505", + "lbl" : "WIC data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000506", + "lbl" : "socio-economic data item", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000507", + "lbl" : "obsolete non-binary gender identity datum", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social identity information content entity that is about whether some person identifies as some gender." + "val" : "A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender." }, + "comments" : [ "Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.)\n\nExamples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role)" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "non-binary gender identity datum" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "Paul Fabry" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Afaraf" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Qafar af" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Qafaraf" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "’Afar Af" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "non-binary gender identity information content entity" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002025", + "val" : "aa" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "aar" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "aar" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000210", - "lbl" : "female gender identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002029", + "lbl" : "education process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gender identity information content entity that is about some person's identifying as female in gender." + "val" : "A planned process with an active participant who acquires mental representations of information content entities (ICEs), which had no previous mental representation in the cognitive system, and through repeated use or application of these ICEs either (1) becomes the bearer of a new instance of some type of capability, and the participant was not previously the bearer of that instance of that type of capability, (2) \"improves\" an existing capability as demonstrated through realization(s) of that capability, and/or (3) loses a capability whose realization is considered negative." }, + "comments" : [ "An interesting question is whether there must be another participant who is the \"educator\". Some might object that many people are \"self taught\". A real case of being self taught is the first person who learned to play a stringed instrument, or to spin a ball on the tip of a finger. There was no previous information about that type of skill. The ICEs acquired are via one's sensory systems (vision, proprioception, auditory, etc.).\n\nOn the other hand, in the case of those who are self-taught by reading books or watching videos, or acquiring some other form of ICEs concretized outside their brain, one argument might be that the author of those ICEs somehow \"plays a role\" in the education, although they cannot participate in the education process itself (If I read Aristotle, and through repeated application of the information I acquire through doing so, develop the ability to write better ontology definitions, surely Aristotle did not actively participate in my particular education process, although he did influence it in a very real way).", "The loss of a \"bad\" capability is something like losing a bad golf swing and replacing it with a good one. Also a capability to disrupt the classroom might be something an educating process diminishes possibly to the point of \"removal\" in a student.\n\nThis addition to the definition notwithstanding, we do not intend to incorporate the receipt of punishment into the definition of educating." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "educating" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "learning process" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An act of acquiring new information and repeatedly applying that information to develop a new skill, improve an existing skill, and/or losing a skill at doing something \"bad\"." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000211", - "lbl" : "male gender identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002030", + "lbl" : "educational objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gender identity information content entity that is about some person's identifying as male in gender." + "val" : "An objective specification that describes the type of capability or capabilities to be imparted or improved by its realization, which is an educating (education process)." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "educational objective specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An objective specification that describes the new knowledge & skill(s) to be obtained via an education process." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000212", - "lbl" : "non-binary identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002031", + "lbl" : "educational program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A gender identity information content entity that is about some person's identifying as non-binary in gender." + "val" : "A plan specification with an educational objective specification as part." }, + "comments" : [ "Very broad. Covers everything from grade school to high school to college to graduate education, a MOOC, an individual course, a tutorial at a conference, a continuing education course or program, an informed consent video, etc, etc." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "educational plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A plan specification with one or more educational objectives." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000213", - "lbl" : "racial identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002032", + "lbl" : "completing a program of education", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social identity information content entity that is about whether some person identifies as some race." + "val" : "An educating that realizes a concretization of some program of education." }, + "comments" : [ "Note that parent class 'educating' and referenced class 'program of education' are defined elsewhere in this education module of OMRSE.", "This class refers extremely broadly to the successful realization of any program of education: a single course, first grade, MD, PhD, high school, the ninth grade, getting a black belt in karate, getting a master mechanic certification, a bachelor's degree, a masters degree, a graduate certificate, early childhood education program, and even getting a certificate at the end of some week-long workshop, summer camp, a certifcate from a cooking class, an actuarial certification." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "completing a program of education" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000214", - "lbl" : "OMB racial identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002033", + "lbl" : "early childhood education plan specification", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A racial identity information content entity that uses OMB terminology and definitions for race or terminology that is strictly mapped onto the OMB race terms." + "val" : "An educational program whose intended active participant, when a concretization of it is realized, is a human child of age birth to 8 years or a human fetus prior to birth." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "early childhood education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "pre-K education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "prekindergarten education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "preschool education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://apps.who.int/iris/bitstream/handle/10665/69729/a91213.pdf?sequence" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000215", - "lbl" : "OMB American Indian or Alaska Native identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002034", + "lbl" : "primary education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as American Indian or Alaska Native, which is intended to mean having origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." + "val" : "An education plan specification with one or more primary education objective specifications as parts, and these are the only objective specifications it has as parts." }, - "comments" : [ "This definition corresponds to that used by OMB. It is worth noting that the OMB definition from which this one is derived is problematic, in that it implies that one's race cannot be Native American or Alaskan Native unless one maintains tribal affiliations or community attachment." ], + "comments" : [ "In the united states, also called \"elementary education\"", "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only primary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Primary education provides learning and educational activities typically designed to provide students with fundamental skills in reading, writing and mathematics (i.e. literacy and numeracy), and to establish a sound foundation for learning and solid understanding of core areas of knowledge and personal development, preparing for lower secondary education. It aims at learning at a basic level of complexity with little if any specialisation." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "primary education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "elementary education" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000216", - "lbl" : "OMB Asian identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002035", + "lbl" : "primary education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as Asian, which is intended to mean having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." + "val" : "An education objective specification that has a concretization that, when realized, results in the active participant's acquisition and development of fundamental skills in reading, writing and mathematics (i.e. literacy and numeracy)." }, + "comments" : [ "By the end of primary education, the student has established a sound foundation for learning and solid understanding of core areas of knowledge and personal development, preparing for lower secondary education. It aims at learning at a basic level of complexity with little if any specialisation." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "primary education objective specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/en/glossary-term/primary-education-isced-1" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000217", - "lbl" : "OMB black or African American identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002036", + "lbl" : "lower secondary education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as black or African American which is intended to mean having origins in any of the black racial groups of Africa." + "val" : "An education objective specification that has a concretization that, when realized, confers to the active participant skills and knowledge in subject areas more specialized than basic reading, writing, and mathematics, with the overall goal of laying the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities." }, + "comments" : [ "Examples of specific subjects could--but are not necessarily required to--include biology, history, science, literature, music, art. Programs at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects.", "Programmes at ISCED level 2, or ‘lower secondary’ education, are typically designed to build upon the fundamental teaching and learning processes which begin at ISCED level 1. Usually, the educational aim is to lay the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities. Programmes at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "lower secondary education objective specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/en/glossary-term/lower-secondary-education-isced-2" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000218", - "lbl" : "OMB Native Hawaiian or other Pacific Islander identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002037", + "lbl" : "awarding an academic degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as Native Hawaiian or other Pacific Islander, which is intended to mean having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." + "val" : "A deontic document act that has as specified output an academic degree and that confers on recipient of the academic degree the recognition and the claims and obligations that accompany the degree." }, + "comments" : [ "Different degrees have different claims and obligations associated with them. For example, having a medical degree (either M.D. or D.O.) entitles a person to sit for stage 3 of the US Medical Licensing Exam (otherwise one may not take the exam)." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "awarding of an academic degree" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000219", - "lbl" : "OMB white identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002038", + "lbl" : "basic education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An OMB racial identity information content entity that is about some person's identifying as white which is intended to mean having origins in any of the original peoples of Europe, the Middle East, or North Africa." + "val" : "An education plan specification that has as part both a primary educational objective specification and a lower secondary educational objective specification." }, + "comments" : [ "Most nations in the world mandate that children complete at least a basic education program. Some nations go further and include upper secondary education after basic education.", "Whole range of educational activities, taking place in various settings, that aim to meet basic learning needs as defined in the World Declaration on Education for All (Jomtien, Thailand, 1990). According to ISCED standard, basic education comprises primary education (first stage of basic education) and lower secondary education (second stage). It also covers a wide variety of non-formal and informal public and private activities intended to meet the basic learning needs of people of all ages." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "basic education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/en/glossary-term/basic-education" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000220", - "lbl" : "sexual orientation identity information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002039", + "lbl" : "lower secondary education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social identity information content entity that is about whether some person identifies as having some sexual orientation." + "val" : "An education plan specification with one or more lower secondary education objective specifications as parts, and these are the only objective specifications it has as parts." }, + "comments" : [ "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only lower secondary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Programmes at ISCED level 2, or ‘lower secondary’ education, are typically designed to build upon the fundamental teaching and learning processes which begin at ISCED level 1. Usually, the educational aim is to lay the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities. Programmes at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects.", "Requires successful completion of a primary education program as a pre-requisite." ], "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Amanda Hicks" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "lower secondary education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000221", - "lbl" : "residence ZIP code information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002040", + "lbl" : "upper secondary education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that is about some geographical region, in which a postal delivery route denoted by a particular ZIP code is realized, and that is the specified output of a disclosure of residence." + "val" : "An educational objective specification that has a concretization that, when realized, confers on the active participant skills and knowledge that prepare them for tertiary education, or employment, or both." }, + "comments" : [ "Programmes at ISCED level 3, or ‘upper secondary’ education, are typically designed to complete secondary education in preparation for tertiary education, or to provide skills relevant to employment, or both. Programmes at this level offer students more varied, specialised and in-depth instruction than programmes at lower secondary education (ISCED level 2). They are more differentiated, with an increased range of options and streams available." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "upper secondary education objective specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/en/glossary-term/upper-secondary-education-isced-3" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000222", - "lbl" : "debt obligation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002041", + "lbl" : "upper secondary education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A directive information entity that prescribes that something will be transferred from some human or organization that is the bearer of a duty holder role to another human or organization that is the bearer of a claimant role." + "val" : "An education plan specification with one or more upper secondary education objective specifications as parts, and these are the only objective specifications it has as parts." }, + "comments" : [ "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only lower secondary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Programmes at ISCED level 3, or ‘upper secondary’ education, are typically designed to complete secondary education in preparation for tertiary education, or to provide skills relevant to employment, or both. Programmes at this level offer students more varied, specialised and in-depth instruction than programmes at lower secondary education (ISCED level 2). They are more differentiated, with an increased range of options and streams available.", "Requires successful completion of a lower secondary education program as a pre-requisite." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "debt obligation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Three Arrows Capital declared bankruptcy on July 1, 2022 after defaulting on a $665 million debt obligation owed to Voyager Digital." + "val" : "upper secondary education plan specification" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000223", - "lbl" : "disclosure of residence", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002042", + "lbl" : "higher education program", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "A social act that creates an information content entity that is about some geographical region in which a human being dwells." - }, + "comments" : [ "Includes college, university, community college, professional schools (MD, RN, PharmD, PT, OT, DDS, dental hygienist, etc.), and so on.", "Refers to all higher education beyond secondary education, and thus encompasses ISCED levels 5 and above, which will eventually be subclasses of this one.", "Requires successful completion of a secondary education program as a pre-requisite." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "higher education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "post-secondary education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "post-secondary education program" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000224", - "lbl" : "electronic health record data set", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002043", + "lbl" : "higher education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data set whose members are obtained from one or more electronic health records." + "val" : "An educational objective specification that has a concretization that, when realized, confers on the active participant skills and knowledge in a specialized discipline, and culminates in the awarding of an academic degree." }, + "comments" : [ "Refers to all education beyond secondary education that leads to the awarding of an academic degree." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "higher education objective specification" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "EHR data set" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brocchausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "val" : "post-secondary education objective" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000225", - "lbl" : "health care claim data set", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002044", + "lbl" : "vocational education objective", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data set whose members are the specified output of some process of adjudicating health care insurance claims (and whose inputs are at least partly some members of a health care billing data set)." + "val" : "An educational objective specification that has a concretization that, when realized, is realized by a process that confers on the active participant knowledge and skills required to realize a particular type of employee role for a given occupation or trade." }, - "comments" : [ "It covers prescription claims because pharmacies bill insurance companies for patients’ prescriptions via submitting insurance claims.", "The insurance claim is submitted to the insurance company by either the patient or the provider. It is not necessarily always the provider, although in the United States, it typically is.", "The outcome of the adjudication of a claim in the claims dataset could be favorable or unfavorable for the healthcare provider, the patient, or both. The idea is just that they’ve been adjudicated, one way or the other (or anything in between if that’s a possibility).", "The reason we say billing data are only part of the input is because we are not conflating the insurance claim with the bill. It is our understanding that the provider’s bill of services is either part of the claim or “attached” to it in some manner, but doesn’t constitute the entire claim itself.", "The sources of these data are held by insurers or other health plan providers." ], + "comments" : [ "Usually the skills are a major focus moreso than in other types of education. For example, auto mechanics, plumbers, and electricians." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "vocational education objective specification" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brocchausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/sites/default/files/documents/international-standard-classification-of-education-isced-2011-en.pdf" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000226", - "lbl" : "health care billing data set", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002045", + "lbl" : "highest level of education data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data set whose members are obtained from billing-related data sources that (i) are generated by a health care organization as a result of internal administrative processes, and (ii) are about services rendered or materials used during some health care encounter." + "val" : "A socio-economic data item that is about a person and their completion of an education program (and its type), where that education program is the last one in a sequence (of education programs) that the person has completed, where each education program completed except the last one is a pre-requisite to the education program completed after it." }, + "comments" : [ "This data item in a typical attribute-value system such as table, XML, JSON takes values like \"secondary education\", \"Associate Degree\", \"Bachelor Degree\", \"High School\", and so on." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Alan Ruttenberg" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education socio-economic data item" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000227", - "lbl" : "health care administrative process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002046", + "lbl" : "vocational education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process (i) that is neither a health care process nor an ancillary health care process, and (ii) in which some employee of a health care organization manages, or helps to manage, the performance of tasks that realize the functions of that organization." + "val" : "An educational plan specification that has a vocational objective specification as part." }, + "comments" : [ "Vocational education programs are designed for learners to acquire the knowledge, skills and competencies specific to a particular occupation, trade, or class of occupations or trades. Such programs may have work-based components (e.g. apprenticeships, dual-system education programmes). Successful completion of such programs leads to labor market-relevant, vocational qualifications acknowledged as occupationally-oriented by the relevant national authorities and/or the labor market." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Recording data in an EHR. Financial tasks for a healthcare organization. Scheduling shifts for health care workers." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "vocational education plan specification" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://uis.unesco.org/sites/default/files/documents/international-standard-classification-of-education-isced-2011-en.pdf" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000228", - "lbl" : "principal diagnosis-assignment process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002047", + "lbl" : "kindergarten education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." + "val" : "A primary education plan specification that specifies the competencies and information content entities that should be acquired by students in the first year of primary education in the United States." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "kindergarten education plan specification" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T12:38:43Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000229", - "lbl" : "secondary diagnosis-assignment process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002048", + "lbl" : "undergraduate higher education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about an underlying condition that is distinct from the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." + "val" : "A higher education plan specification that specifies the awarding of an associates or bachelors degree in the United States or equivalent degrees in other nations, and specifies as a pre-requisite the completion of some secondary education program." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "undergraduate higher education plan specification" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "undergraduate education program" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T12:52:46Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000230", - "lbl" : "county smoking survey plan specification", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002049", + "lbl" : "graduate higher education program", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A survey plan specification that aims to collect information about the smoking behavior or lack thereof of a population on a county level. Concretization of a smoking survey plan that is stratified by county." + "val" : "A higher education plan specification that specifies the awarding of a graduate certificate or degree, and specifies as a pre-requisite the awarding of an undergraduate degree." }, + "comments" : [ "Graduate degrees include masters, PhD, MD, PharmD, and other post-graduate professional degrees. To distinguish MS/PhD from the professional ones, subclass this class.", "The prerequisite degree is at the bachelors level or equivalent. An associates degree is almost never sufficient for entry into graduate education programs." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Alachua county smoking survey plan specification." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jiang Bian" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "graduate higher education plan specification" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "graduate education program" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:01:34Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000231", - "lbl" : "county smoking survey execution", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002050", + "lbl" : "highest level of education is grades 1 through 6 data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A survey execution that realizes the concretization of a smoking survey plan specification that is stratified by county." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of first through sixth grade." }, + "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of primary education in the United States." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Alachua county smoking survey execution." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education is completion of grades one through six socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jiang Bian" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:23:46Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000232", - "lbl" : "county smoking survey data", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002051", + "lbl" : "highest level of education is grades 7 through 9 data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Survey data that is the specified output of a county smoking survey execution." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of seventh (7th) through ninth (9th) grade." }, + "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of lower secondary education in the United States." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Alachua county smoking survey data." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education is completion of grades seven through nine socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Hansi Zhang" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jiang Bian" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:27:15Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000233", - "lbl" : "smoking rate calculation", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002052", + "lbl" : "highest level of education is grades 10 through 12 data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data transformation that has data about the smoking status of a population as its specified input and a percentage or ratio of smokers in that population as a specified output." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of tenth (10th) through twelfth (12th) grade." }, + "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of upper secondary education in the United States." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Calculating the Alachua County smoking rate from Alachua County smoking data." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education is completion of grades ten through twelve socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:27:50Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000234", - "lbl" : "county smoking rate data", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002053", + "lbl" : "highest level of education is completion of undergraduate degree data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data item that is the specified output of a smoking rate calculation that has data about smoking behavior or lack there of on a county level." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some undergraduate degree." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The Alachua County smoking rate." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "highest level of education is completion of some undergraduate degree socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:28:27Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000235", - "lbl" : "money", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002054", + "lbl" : "highest level of education is completion of graduate certificate or degree data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A debt obligation between two parties that has part a scalar value specification and whose concretizations indicate that their bearers can be used in a financial transaction or payment of debt, or as a measure of the value of some entity in a financial valuation process or prospective financial valuation process." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some graduate certificate or degree." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "money" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Todd does not have enough money to buy more plants at the horticultural club's poinsettia sale." + "val" : "highest level of education is completion of some graduate degree socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:28:49Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000236", - "lbl" : "currency", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002055", + "lbl" : "highest level of education is completion of vocaational education program data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A material entity that is the bearer of a concretization of money and is created by some governmental organization or on behalf of some governmental organization that has authorized its creation." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some vocational education program." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "currency" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "US currency is an accepted form of legal tender, not just in the United States, but in many countries around the world, such as El Salvador." + "val" : "highest level of education is completion of some vocational education program socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" + }, { + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:29:28Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000237", - "lbl" : "exchange of ownership", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002056", + "lbl" : "highest level of education is completion of kindergarten data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process whereby one agent (or active participant) or a group of agents transfer ownership of some property to another agent (or active participant) or group of agents in the process, who in return transfer ownership of some their property to the first agent (or active participant)." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is pre-kindergarten." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates that a person has completed only early childhood education and nothing more." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "exchange of ownership" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Tom exchanged ownership of his computer for Tina's scooter." + "val" : "highest level of education is completion of kindergarten socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "barter" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:47:38Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000238", - "lbl" : "financial transaction", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002057", + "lbl" : "highest level of education is completion of pre-kindergarten data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process whereby one participant partly or completely fulfills an obligation to another participant by transferring ownership of some other debt obligation, which is typically money." + "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is kindergarten." }, + "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "financial transaction" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Apple acquired semiconductors from Samsung in a financial transaction yesterday." + "val" : "highest level of education is completion of pre-kindergarten socio-economic data item" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "monetary transaction" + "pred" : "http://purl.org/dc/elements/1.1/creator", + "val" : "http://orcid.org/0000-0002-9881-1017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2020-09-02T13:48:10Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000239", - "lbl" : "payment of debt", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002058", + "lbl" : "linguistic literacy competence", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process whereby ownership of some entity of value is transferred by one participant to another to fulfill some obligation, on their behalf, after some service is performed or the ownership of some entity is exchanged." + "val" : "A disposition borne by a human being that (1) has a linguistic competence as a dispositional part and (2) if realized, is realized by the bearer's achievement of some personal goal." }, + "comments" : [ "Other dispositions that it can and likely does have as dispositional parts include cultural competencies, interpersonal competencies, competencies for navigating a society's systems of laws, claims, obligations, deontic declarations, and norms of financial and other economic exchange.", "The realization of this disposition by definition realizes the bearer's linguistic competence that is a dispositional part of this disposition. The realization of the linguistic competence would be an occurrent part of the realization of this disposition (and not a temporal part).", "Whereas linguistic competence may be afforded to non-human agents, literacy is nearly always considered in the context of human beings." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "payment of debt" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "I made a debt payment with my credit card company yesterday and no longer owe them money." + "val" : "language literacy competence" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "human literacy" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "linguistic literacy" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "val" : "Jiang Bian" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Xi Yang" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Yonghui Wu" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000240", - "lbl" : "financial valuation process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002059", + "lbl" : "caregiver role", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that has as specified output some scalar measurement datum that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some other material entity." + "val" : "A human social role that, if realized, is realized in providing assistance in the activities of daily living of another human being who possesses reduced capability to complete some of these activities alone." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "financial valuation process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The financial valuation of Ravi's car today determined that the car is worth $2000." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "John Judkins" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000241", - "lbl" : "prospective financial valuation process", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002060", + "lbl" : "family relationship", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A planned process that has as specified output some predicted value that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some material entity at some point in the future." + "val" : "A relational quality that inheres within two or more persons related as members of a domestic group, or a number of domestic groups linked through descent from a common ancestor, marriage, or adoption." }, + "comments" : [ "We are also intending on including other family arrangements. This is something we are working on." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "prospective financial valuation process" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ERO_0002033" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The prospective valuation of my company's stock indicates strong optimism for our financial growth over the next few years." + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "John Judkins" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000242", - "lbl" : "intimate partnership", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002061", + "lbl" : "monetary personal income data item", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relational quality inhering in persons by virtue of being each other’s spouse, boyfriend/girlfriend, dating partner, or ongoing sexual partner." + "val" : "A data item that is about the sum of earnings for some person(s) from various forms of payment or profits." }, + "comments" : [ "We use the phrase ‘some person’ in the definition because this class can be about an individual's or a household's earnings. Similarly, we use 'personal income' in the label because the term is typically restricted to individuals and households. This class is also restricted to being about monetary forms of income." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Examples of monetary forms of payment include: wages, salary, or tips; interest generated by capital; dividends earned; lottery, game, or contest monetary winnings; alimony; royalties; trusts; pensions; receipt of rental payments; unemployment payments; social security payments; worker's compensation; social security payments; or profit from entrepreneurial activities." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Chris Stoeckert" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000243", - "lbl" : "abusive behavior", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002062", + "lbl" : "concretization-utilization process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Behavior that is cruel, violent, demeaning, or invasive." + "val" : "Process in which some participant utilizes some specifically dependent continuant as a concretization of some generically dependent continuant." }, + "comments" : [ "Instances include any process that brings it about that some specifically dependent continuant begins to stand in a concretization relation to some generically dependent continuant, as well as any process in which someone makes use of a pre-established concretization relation. To be clear, instances do not include using concretizations of words or letters for purposes that do not make use of the concretization relations in which they stand (for example, hanging up a sign in a foreign language as a decoration because one likes the colors, despite having no idea what the sign says).", "Instances include, but are not limited to, processes that bring about cognitive concretizations." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Taking notes on a meeting is an example in which the concretization relation is newly established, since the SDCs that concretize the GDCs come into existence as the notes are written. In contrast, using slides prepared by someone else in order to convey information during a presentation is a case of using a concretization in which the performer neither brings the concretizing SDCs into existence nor is responsible for their standing in the concretization relation to the relevant GDCs. A nonlinguistic example is drawing the logo of one’s favorite brand, in which one creates a pattern that concretizes a GDC that is also concretized by patterns on products of the brand." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000244", - "lbl" : "psychologically abusive behavior", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002063", + "lbl" : "linguistic concretization-utilization process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Abusive behavior in which the aggressor does or attempts to do the following: mentally or emotionally harm or exert control over another." + "val" : "A concretization-utilization process in which the utilized specifically dependent continuant concretizes the generically dependent through use of some language." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000245", - "lbl" : "physically abusive behavior", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002064", + "lbl" : "concretization-interpretation process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Abusive behavior in which the aggressor does or attempts to do the following: harm, restrain, or coerce another through physical force." + "val" : "Process in which some participant infers that some particular specifically dependent continuant stands in the concretization relation to some particular generically dependent continuant." }, + "comments" : [ "The interpretation need not be accurate. It may even be the case that the specifically dependent continuant has not previously concretized anything." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "For example, reading a text message that says, “It is raining outside,” and inferring that the words on the screen are meant to convey information about the weather. The pattern on the screen that corresponds to the words is the SDC, and the ICE about the rain is the GDC. Or, hearing your spouse say, “Can you come to the kitchen?” and then knowing that your spouse wants you to come to the kitchen. You have interpreted the patterns of the sound as concretizing a GDC about what your spouse wants. Or, seeing a drawing of a basketball player and inferring—perhaps incorrectly—that it is of Michael Jordan." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Sarah Bost" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000246", - "lbl" : "sexually abusive behavior", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002065", + "lbl" : "linguistic concretization-interpretation process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Abusive behavior in which the aggressor does or attempts to do the following: force or coerce another to participate in a sexual act to which the latter has not freely given consent." + "val" : "A concretization-interpretation process in which the specifically dependent continuant is inferred to concretize the generically dependent continuant in a way that makes use of some language." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000247", - "lbl" : "is abuse of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation between an abusive behavior and one upon whom it is inflicted." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000248", - "lbl" : "has aggressor", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation between an abusive behavior and one who inflicts it upon someone or something else." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "Sarah Bost" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000249", - "lbl" : "birth attendant role", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002066", + "lbl" : "linguistic competence", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A health care provider role that is realized in maintaining the health of a human being during their pregnancy and both them and the neonate during labor, delivery, and postpartum." + "val" : "A disposition that inheres in some material entity and is such that that, if realized, it is realized by either some linguistic concretization-utilization process or some linguistic concretization-interpretation process." }, + "comments" : [ "When realized in a concretization-utilization process, the only relevant concretization may in some cases be a cognitive one, but that suffices to realize a linguistic competence. For example, suppose one begins to write a letter, planning out the words ahead of time, but is interrupted before beginning to write and never resumes. During the process of planning out the words and what one intends to communicate, one is already concretizing words cognitively, as well as considering which combinations of words one can use to concretize additional generically dependent continuants. In doing so, one performs processes that realize one's linguistic competence, without producing any concretizations other than those cognitive ones." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "S. Clint Dowland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "skilled birth attendant role" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "https://orcid.org/0000-0001-6595-0902" + "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000250", - "lbl" : "linguistic competence information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002068", + "lbl" : "communication", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An information content entity that conveys that a particular person has a linguistic competence for a particular language" + "val" : "A process in which some participant shares some generically dependent continuant with some other participant. The former utilizes some specifically dependent continuant that concretizes the generically dependent continuant intended to be shared, while the latter interprets that specifically dependent continuant to concretize some particular generically dependent continuant, aiming to accurately infer the other participant’s intent." }, + "comments" : [ "For example, if you tell someone, “It is raining,” you produce sounds that have patterns that concretize information about the weather. Your utilization of that concretization is part of the communication. When the other person hears you, they interpret those patterns to concretize something, which may or may not be the same as what you intended to convey. In other words, they interpret the sounds you produce to have meanings associated with them, and that interpretation process is another part of the communication. If a process does not have a part of each type, it is not a communication.", "The interpretation need not correspond exactly to what was intended by the other participant.", "The term 'participant' in the definition need not refer to a human agent." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Barry Smith" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jobst Landgrebe" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000251", - "lbl" : "primary language information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002069", + "lbl" : "language", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A linguistic competence information content entity that conveys the language is the one for which the person has their most proficient linguistic competence." + "val" : "A disposition that (i) is an aggregate of linguistic competences, considered as forming a distinct group on the basis of perceived common characteristics, such as mutual intelligibility among their bearers, in addition to historical or cultural factors; (ii) if realized, is realized in any and all realizations of those linguistic competences; and (iii) inheres in a linguistic community." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "William R. Hogan" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Barry Smith" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jobst Landgrebe" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000252", - "lbl" : "language-at-home information content entity", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002070", + "lbl" : "disclosure of preferred language", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A linguistic competence information content entity that conveys the person uses the language at home." + "val" : "A communication in which some participant states a preference for some communicative process to be in a certain language, via some concretization of some preferred language information content entity." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Barry Smith" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jobst Landgrebe" + "val" : "Mathias Brochhausen" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000253", - "lbl" : "religious gathering", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002071", + "lbl" : "preferred language information content entity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A social act or aggregate of social acts that include some worship, prayer, or proselytizing." + "val" : "An information content entity that is about some person and some language, and that conveys the language with which that person prefers to communicate within some given context." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000254", - "lbl" : "hospital bed capacity data item", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00002072", + "lbl" : "role in human social processes", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A count of the number of patients that some hospital facility has the capacity for." + "val" : "A role that inheres in some entity that is realized in a social act." }, + "comments" : [ "Previous definition: A role played by an entity in human social processes." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/omrse/releases/2023-10-08/omrse.owl" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "val" : "Mathias Brochhausen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000255", - "lbl" : "proportion of population in an elementary occupation", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000074", + "lbl" : "academic degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A data item that is the output of some data transformation that takes as input the number of individuals in a population who are occupation holders and has as output the proportion of those individuals who are classified by the European Skills, Competences, Qualifications and Occupations as door-to-door sales worker, news or street vendors; building cleaning workers; pressers, textile, garment, or related materials; septic tank servicers or sewer pipe cleaners; farmworkers or laborers, crop, nursery, or greenhouse; farmworkers, farm, ranch, or aquacultural animal; agricultural workers, all other; landscaping or groundskeeping workers; grounds maintenance workers, all other; forest or conservation workers; logging workers, all other; fishing or hunting workers; helpers--extraction workers; extraction workers, all other; helpers, construction trades; rail-track laying or maintenance equipment operators; construction laborers; helpers--production workers; production workers, all other; laborers or material movers; refuse or recyclable material collectors; couriers or messengers; material moving workers, all other; aircraft cargo handling supervisors; first-line supervisors of helpers, laborer, or material mover, hand; first-line supervisors of transportation worker, all other; tank car, truck, or ship loaders; cooks, fast food; cooks, short order; food preparation workers; dining room or cafeteria attendants or bartender helpers; dishwashers; food preparation or serving related workers, all other; personal care or service workers, all other; baggage porters or bellhops; maintenance or repair workers, general; installation, maintenance, or repair workers, all other; meter readers, utilities; coin, vending, or amusement machine servicers or repairers; motion picture projectionists; ushers, lobby attendants, or ticket takers; amusement or recreation attendants; locker room, coatroom, or dressing room attendants; and parking attendants." + "val" : "An information content entity that is the specified outcome of and documents the sucessful completion of a tertiary education program." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Currently, the Occupation Ontology (OccO ) only represents occupations as they are defined by O*NET. We define this class extentionally according to the O*NET-defined occupations that map to occupations in ESCO that are classified as elementary occupations." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "John Judkins" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", + "val" : "Recognized degree awarded after successful completion of a college or post-graduate porgram." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000256", - "lbl" : "Medicaid policy holder role", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000081", + "lbl" : "associate degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A policy holder role that inheres in a person who participates in the creation of an insurance policy with a US state Medicaid agency." + "val" : "An academic degree awarded by colleges and universities upon completion of a program of study lasting two years." }, "basicPropertyValues" : [ { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/w/index.php?title=Associate_degree&oldid=723897149" + }, { + "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", + "val" : "Recognition awarded after completion of a specific curriculum from an accredited tertiary education provider that falls between high school and bachelor's degree program." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000257", - "lbl" : "insurance company", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000082", + "lbl" : "master's degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "An insurance organization that is privately owned and that participates in the creation of insurance policies in return for some money from the policy holder." + "val" : "An academic degree awarded by universities upon completion of a course of study demonstrating a mastery or high-order overview of a specific field of study or area of professional practice.[1] Within the area studied, graduates are posited to possess advanced knowledge of a specialized body of theoretical and applied topics; high order skills in analysis, critical evaluation, or professional application; and the ability to solve complex problems and think rigorously and independently." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/w/index.php?title=Master%27s_degree&oldid=726036185" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000258", - "lbl" : "private insurance policy holder role", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000083", + "lbl" : "bachelor's degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A policy holder role that inheres in a person who participates in the creation of an insurance policy with an insurance company." + "val" : "An academic degree awarded by colleges and universities upon completion of a course of study lasting three to seven years." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/w/index.php?title=Bachelor%27s_degree&oldid=725713923" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000259", - "lbl" : "US state Medicaid agency", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000084", + "lbl" : "bachelor's of nursing degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A government organization that administers a given US state's Medicaid program by participating in the creation of insurance policies with eligible people and by participating in some payment of debt for a specified aggregate of health care encounters, specified processes (e.g, treatments, diagnostic tests) that are part of those encounters, and material entities used or prescribed during the encounters (e.g., medicine, prosthetics, glasses)." + "val" : "An academic degree in the science and principles of nursing, granted by an accredited tertiary education provider after the successful completion of a bachelor's of nursing program." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/w/index.php?title=Bachelor_of_Science_in_Nursing&oldid=725962822" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000260", - "lbl" : "lives in", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A relation between a household and a material entity that the household stores their possessions in and sleeps in habitually." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000262", - "lbl" : "categorization scheme", + "id" : "http://purl.obolibrary.org/obo/OOSTT_00000086", + "lbl" : "master's in the science of nursing degree", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Information content entity that characterizes some aggregate of entities as partitioned into distinct subgroups, thereby demarcating them as categories." + "val" : "An academic degree in the science and principles of nursing, granted by an accredited tertiary education provider after the successful completion of a master's of nursing program." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "val" : "John Judkins" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", + "val" : "An advanced academic degree in the principles and practices of nursing, with a focus on administration, education, or advanced nursing practice, granted by an accredited college or university after the successful completion of a master's of nursing program." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000263", - "lbl" : "demarcates", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/PATO_0000001", + "lbl" : "quality", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relation in which a categorization scheme stands to each category into which it partitions things." + "val" : "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities", + "xrefs" : [ "PATOC:GVG" ] + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/PATO_0000051", + "lbl" : "morphology", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "morphology" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000264", - "lbl" : "demarcated by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/PATO_0000122", + "lbl" : "length", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relation in which a category stands to the categorization scheme that demarcates it as a category." + "val" : "A 1-D extent quality which is equal to the distance between two points." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "length" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000265", - "lbl" : "social categorization scheme", + "id" : "http://purl.obolibrary.org/obo/PATO_0000125", + "lbl" : "mass", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Categorization scheme that divides humans into groups considered by themselves or others as distinct on the basis of assumed common characteristics." + "val" : "A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "mass" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000267", - "lbl" : "social category", + "id" : "http://purl.obolibrary.org/obo/PATO_0001018", + "lbl" : "physical quality", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Collection of humans demarcated by some social categorization scheme." + "val" : "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "physical quality" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000268", - "lbl" : "racial categorization scheme", + "id" : "http://purl.obolibrary.org/obo/PATO_0001025", + "lbl" : "pressure", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "Social categorization scheme based on characteristics assumed to be biologically hereditary and to result in part from common locality of ancestors." - }, + "subsets" : [ "http://purl.org/obo/owl/obo#attribute_slim" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasDefinition", + "val" : "_:genid2147485205" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasDefinition", + "val" : "_:genid2147485206" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "quality" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000269", - "lbl" : "racial category", + "id" : "http://purl.obolibrary.org/obo/PATO_0001241", + "lbl" : "physical object quality", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Social category demarcated by some racial categorization scheme." + "val" : "A quality which inheres in a continuant." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "physical object quality" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/pato.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000270", - "lbl" : "ethnic categorization scheme", + "id" : "http://purl.obolibrary.org/obo/PCO_0000020", + "lbl" : "family", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Social categorization scheme based on characteristics that are primarily cultural—such as ancestry, history, national or tribal background, cultural attachments or traditions, past linguistic heritage, religious affiliations, caste, or claimed kinship." + "val" : "A domestic group, or a number of domestic groups linked through descent (demonstrated or stipulated) from a common ancestor, marriage, or adoption." }, + "comments" : [ "Family membership through marriage or adoption apply primarily to human families. In most species, family membership is defined by common anscestry." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Needs axioms for family relationships." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C25173" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000271", - "lbl" : "ethnic category", + "id" : "http://purl.obolibrary.org/obo/RO_0002577", + "lbl" : "system", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Social category demarcated by some ethnic categorization scheme." + "val" : "A material entity consisting of multiple components that are causally integrated." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.jbiomedsem.com/content/4/1/43" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000272", - "lbl" : "has primary data subject", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/UO_0000001", + "lbl" : "length unit", + "type" : "CLASS", "meta" : { - "definition" : { - "val" : "Relation in which a data item stands to the person it is both about and primarily associated with." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "length unit" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/uo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000273", - "lbl" : "primary data subject of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/UO_0000002", + "lbl" : "mass unit", + "type" : "CLASS", "meta" : { - "definition" : { - "val" : "The inverse of has primary data subject." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "mass unit" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/uo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000274", - "lbl" : "personal data disclosure", + "id" : "http://purl.obolibrary.org/obo/UO_0000003", + "lbl" : "time unit", "type" : "CLASS", "meta" : { - "definition" : { - "val" : "Communication in which a person reports some data items about either that person or another person." - }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "time unit" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/uo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000275", - "lbl" : "has reporter", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/iao/d-acts.owl#obligee_role", + "lbl" : "obsolete obligee role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] + "val" : "Sarah Bost" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000276", - "lbl" : "reporter of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/iao/d-acts.owl#obligor_role", + "lbl" : "obsolete obligor role", + "type" : "CLASS", "meta" : { "definition" : { - "val" : "The inverse of has reporter." + "val" : "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] + "val" : "Sarah Bost" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000277", - "lbl" : "subjective representation", - "type" : "CLASS", + "id" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteClass", + "type" : "CLASS" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000050", + "lbl" : "part of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Cognitive representation in which the representation’s bearer is represented as being its bearer." + "val" : "a core relation that holds between a part and its whole" }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_gp2term", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is part of" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my brain is part of my body (continuant parthood, two material entities)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000278", - "lbl" : "social identity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Subjective representation of its bearer as being a member of some social category." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this day is part of this year (occurrent parthood)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000279", - "lbl" : "racial identity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Social identity for which the category is a racial category." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000281", - "lbl" : "ethnic identity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Social identity for which the category is an ethnic category." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "part_of" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000282", - "lbl" : "behavioral identity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Social identity for which the category is also a behaviorally distinct group defined by its members degree of participation in some type of behavior." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000002" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000284", - "lbl" : "occupation disposition", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A disposition that, if realized, is realized when the bearer intends to, and does, exercise abilities and skills in pursuit of obtaining or maintaining an job role." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000003" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Damion Dooley" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000017" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John Beverley" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000019" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John W. Judkins" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000020" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sam Smith" + "pred" : "http://purl.obolibrary.org/obo/RO_0040042", + "val" : "http://purl.obolibrary.org/obo/BFO_0000031" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William D. Duncan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://ontologydesignpatterns.org/wiki/Submissions:PartOf" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Yongqun He" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:part_of" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Part_of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000285", - "lbl" : "occupation activity", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000051", + "lbl" : "has part", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A process in which an occupation holder participates that realizes either an occupation disposition or job role." + "val" : "a core relation that holds between a whole and its part" }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "occupation process" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Damion Dooley" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has part" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Eric Merrell" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my body has part my brain (continuant parthood, two material entities)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jie Zheng" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John Beverley" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this year has part this day (occurrent parthood)" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John W. Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sam Smith" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William D. Duncan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)\n\nA continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_part" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Yongqun He" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000286", - "lbl" : "U.S. veteran role", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000054", + "lbl" : "realized in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A human role within an organization that inheres in a person who has served in a branch of the U.S. military, is not currently serving in the U.S. military, and the person's service ended in accordance to conditions defined by the U.S. government." - }, + "comments" : [ "Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "realized in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "38 U.S.C. §101(2), as well as “Determining Veteran Status” by the U.S. Department of Veterans Affairs (VA) Office of Small and Disadvantaged Business Utilization (OSDBU): https://www.va.gov/OSDBU/docs/Determining-Veteran-Status.pdf." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this disease is realized in this disease course" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this fragility is realized in this shattering" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigator role is realized in this investigation" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William D. Duncan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is realized by" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "realized_in" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/ro.owl" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "[copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000500", - "lbl" : "job role data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000055", + "lbl" : "realizes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A data item that is about a person's job role and/or its realization." - }, + "comments" : [ "Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Can be about any aspect of employment, such as salary, work location, or employer." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "realizes" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this disease course realizes this disease" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "employment data item" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigation realizes this investigator role" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Chris Stoeckert" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this shattering realizes this fragility" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint. Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000501", - "lbl" : "income data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000502", - "lbl" : "government assistance health care plan data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000503", - "lbl" : "health care plan data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000504", - "lbl" : "government assistance income data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000505", - "lbl" : "WIC data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000506", - "lbl" : "socio-economic data item", - "type" : "CLASS" - }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00000507", - "lbl" : "obsolete non-binary gender identity datum", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/BFO_0000062", + "lbl" : "preceded by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender." + "val" : "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." }, - "comments" : [ "Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.)\n\nExamples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role)" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "non-binary gender identity datum" + "val" : "preceded by" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Paul Fabry" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is preceded by" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "non-binary gender identity information content entity" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "preceded_by" + }, { + "pred" : "http://purl.org/dc/terms/source", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002025", - "lbl" : "ISO 639-1 code", + "id" : "http://purl.obolibrary.org/obo/BFO_0000063", + "lbl" : "precedes", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "ISO 639-1 assigns two-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-1 code that designates them in that standard system." ], + "definition" : { + "val" : "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-1 code" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "precedes" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002026", - "lbl" : "ISO 639-2/B code", + "id" : "http://purl.obolibrary.org/obo/BFO_0000066", + "lbl" : "occurs in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "ISO 639-2/B assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-2/B ('B' is for \"bibliographic applications\") code that designates them in that standard system." ], + "definition" : { + "val" : "b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" + }, + "comments" : [ "Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-2/B code" + "val" : "occurs in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "occurs_in" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "unfolds in" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "unfolds_in" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Occurs_in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002027", - "lbl" : "ISO 639-2/T code", + "id" : "http://purl.obolibrary.org/obo/BFO_0000067", + "lbl" : "contains process", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "ISO 639-2/T assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-2/T ('T' is for \"terminology applications\") code that designates them in that standard system." ], + "definition" : { + "val" : "[copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" + }, + "comments" : [ "Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-2/T code" + "val" : "site of" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/bfo.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002028", - "lbl" : "ISO 639-3 code", + "id" : "http://purl.obolibrary.org/obo/BFO_0000075", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000117", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000118", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000121", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000132", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000136", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000138", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000139", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000181", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000039", + "lbl" : "has measurement unit label", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000135", + "lbl" : "obsolete_specifically denotes", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "ISO 639-3 assigns three-character identifiers to individual human languages. This annotation property is for use in annotating OWL2 individuals in OMRSE that represent languages with their appropriate ISO 639-3 code that designates them in that standard system." ], + "definition" : { + "val" : "c specifically denotes r =def \nr is a portion of reality\n& c is a particular quality\n& c depends specifically on some independent continuant b \n& b acquired c as the result of the achievement of an objective to enable pointing to r repeatedly. \n\nMarked means there is a changed or additional quality of the bearer - the quality is the information carrier.\n\nCase 1\nMemory trace as mark created when reading some description of some friend. The trace can denote.\n\nCase 2\nPattern of ink arrayed on paper as mark when writing down a friend's name\n\nCase 3\nPattern of magnetic domains on scattered pieces of a hard disk platter as mark when saving a file." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "ISO 639-3 code" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "The process of creation is, for example, writing down on paper the name of a friend by deliberately creating a certain pattern using ink.\n\nHere the ink + paper is the independent continuant and the carrier is the pattern in the ink.\n\nc = pattern in the ink\nb = paper + ink\nr = friend" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "8/6/2009 Alan Ruttenberg: The suggestions is to deprecate specific and generically denotes in favor of a single denote relationship that corresponds to the generic sense" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - } ] + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002029", - "lbl" : "education process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000136", + "lbl" : "is about", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A planned process with an active participant who acquires mental representations of information content entities (ICEs), which had no previous mental representation in the cognitive system, and through repeated use or application of these ICEs either (1) becomes the bearer of a new instance of some type of capability, and the participant was not previously the bearer of that instance of that type of capability, (2) \"improves\" an existing capability as demonstrated through realization(s) of that capability, and/or (3) loses a capability whose realization is considered negative." + "val" : "A (currently) primitive relation that relates an information artifact to an entity." }, - "comments" : [ "An interesting question is whether there must be another participant who is the \"educator\". Some might object that many people are \"self taught\". A real case of being self taught is the first person who learned to play a stringed instrument, or to spin a ball on the tip of a finger. There was no previous information about that type of skill. The ICEs acquired are via one's sensory systems (vision, proprioception, auditory, etc.).\n\nOn the other hand, in the case of those who are self-taught by reading books or watching videos, or acquiring some other form of ICEs concretized outside their brain, one argument might be that the author of those ICEs somehow \"plays a role\" in the education, although they cannot participate in the education process itself (If I read Aristotle, and through repeated application of the information I acquire through doing so, develop the ability to write better ontology definitions, surely Aristotle did not actively participate in my particular education process, although he did influence it in a very real way).", "The loss of a \"bad\" capability is something like losing a bad golf swing and replacing it with a good one. Also a capability to disrupt the classroom might be something an educating process diminishes possibly to the point of \"removal\" in a student.\n\nThis addition to the definition notwithstanding, we do not intend to incorporate the receipt of punishment into the definition of educating." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "educating" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "This document is about information artifacts and their representations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "learning process" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of \"mentions\" relation. Weaken the is_about relationship to be primitive. \n\nWe will try to build it back up by elaborating the various subproperties that are more precisely defined.\n\nSome currently missing phenomena that should be considered \"about\" are predications - \"The only person who knows the answer is sitting beside me\" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An act of acquiring new information and repeatedly applying that information to develop a new skill, improve an existing skill, and/or losing a skill at doing something \"bad\"." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002030", - "lbl" : "educational objective", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000142", + "lbl" : "mentions", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An objective specification that describes the type of capability or capabilities to be imparted or improved by its realization, which is an educating (education process)." + "val" : "An information artifact IA mentions an entity E exactly when it has a component/part that denotes E" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "educational objective specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "7/6/2009 Alan Ruttenberg. P4 RC1 munges our GCI so remove it for now: mentions some entity equivalentTo has_part some ('generically denotes' some entity)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "7/6/2009 Alan Ruttenberg: Add this relation following conversation with Jonathan Rees that N&S GCI for is_about was too strong. Really it was simply sufficient. To effect this change we introduce this relation, which is subproperty of is_about, and have previous GCI use this relation \"mentions\" in it's (logical) definition" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "PERSON: Jonathan Rees" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "An objective specification that describes the new knowledge & skill(s) to be obtained via an education process." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person: Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002031", - "lbl" : "educational program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000143", + "lbl" : "mentioned by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A plan specification with an educational objective specification as part." + "val" : "Inverse of the relation 'mentions'" }, - "comments" : [ "Very broad. Covers everything from grade school to high school to college to graduate education, a MOOC, an individual course, a tutorial at a conference, a continuing education course or program, an informed consent video, etc, etc." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "educational plan specification" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "http://orcid.org/0000-0002-8844-9165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "A plan specification with one or more educational objectives." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/250" + }, { + "pred" : "http://purl.org/dc/elements/1.1/date", + "val" : "2022-01-28T07:20:08Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002032", - "lbl" : "completing a program of education", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000219", + "lbl" : "denotes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An educating that realizes a concretization of some program of education." + "val" : "A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically" }, - "comments" : [ "Note that parent class 'educating' and referenced class 'program of education' are defined elsewhere in this education module of OMRSE.", "This class refers extremely broadly to the successful realization of any program of education: a single course, first grade, MD, PhD, high school, the ninth grade, getting a black belt in karate, getting a master mechanic certification, a bachelor's degree, a masters degree, a graduate certificate, early childhood education program, and even getting a certificate at the end of some week-long workshop, summer camp, a certifcate from a cooking class, an actuarial certification." ], + "comments" : [ "" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "completing a program of education" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A person's name denotes the person. A variable name in a computer program denotes some piece of memory. Lexically equivalent strings can denote different things, for instance \"Alan\" can denote different people. In each case of use, there is a case of the denotation relation obtaining, between \"Alan\" and the person that is being named." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2009-11-10 Alan Ruttenberg. Old definition said the following to emphasize the generic nature of this relation. We no longer have 'specifically denotes', which would have been primitive, so make this relation primitive.\ng denotes r =def \nr is a portion of reality\nthere is some c that is a concretization of g \nevery c that is a concretization of g specifically denotes r" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Conversations with Barry Smith, Werner Ceusters, Bjoern Peters, Michel Dumontier, Melanie Courtot, James Malone, Bill Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002033", - "lbl" : "early childhood education plan specification", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000220", + "lbl" : "obsolete_materially denotes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000221", + "lbl" : "is quality measurement of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An educational program whose intended active participant, when a concretization of it is realized, is a human child of age birth to 8 years or a human fetus prior to birth." + "val" : "m is a quality measurement of q at t. When q is a quality, there is a measurement process p that has specified output m, a measurement datum, that is about q" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "early childhood education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "8/6/2009 Alan Ruttenberg: The strategy is to be rather specific with this relationship. There are other kinds of measurements that are not of qualities, such as those that measure time. We will add these as separate properties for the moment and see about generalizing later" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "From the second IAO workshop [Alan Ruttenberg 8/6/2009: not completely current, though bringing in comparison is probably important]\n\nThis one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it \"measuring\" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail.\n\nWerner suggests a solution based on \"Magnitudes\" a proposal for which we are awaiting details.\n--\nFrom the second IAO workshop, various comments, [commented on by Alan Ruttenberg 8/6/2009]\n\nunit of measure is a quality, e.g. the length of a ruler.\n\n[We decided to hedge on what units of measure are, instead talking about measurement unit labels, which are the information content entities that are about whatever measurement units are. For IAO we need that information entity in any case. See the term measurement unit label]\n\n[Some struggling with the various subflavors of is_about. We subsequently removed the relation represents, and describes until and only when we have a better theory]\n\na represents b means either a denotes b or a describes\n\ndescribe:\na describes b means a is about b and a allows an inference of at least one quality of b\n\nWe have had a long discussion about denotes versus describes." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "pre-K education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "From the second IAO workshop: An attempt at tieing the quality to the measurement datum more carefully.\n\na is a magnitude means a is a determinate quality particular inhering in some bearer b existing at a time t that can be represented/denoted by an information content entity e that has parts denoting a unit of measure, a number, and b. The unit of measure is an instance of the determinable quality." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "prekindergarten education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "From the second meeting on IAO:\n\nAn attempt at defining assay using Barry's \"reliability\" wording\n\nassay:\nprocess and has_input some material entity\nand has_output some information content entity \nand which is such that instances of this process type reliably generate \noutputs that describes the input." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "preschool education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it \"measuring\" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail.\n\nWerner suggests a solution based on \"Magnitudes\" a proposal for which we are awaiting details." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://apps.who.int/iris/bitstream/handle/10665/69729/a91213.pdf?sequence" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002034", - "lbl" : "primary education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000222", + "lbl" : "obsolete_describes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000223", + "lbl" : "obsolete_represents", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000235", + "lbl" : "denoted by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education plan specification with one or more primary education objective specifications as parts, and these are the only objective specifications it has as parts." + "val" : "inverse of the relation 'denotes'" }, - "comments" : [ "In the united states, also called \"elementary education\"", "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only primary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Primary education provides learning and educational activities typically designed to provide students with fundamental skills in reading, writing and mathematics (i.e. literacy and numeracy), and to establish a sound foundation for learning and solid understanding of core areas of knowledge and personal development, preparing for lower secondary education. It aims at learning at a basic level of complexity with little if any specialisation." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "primary education plan specification" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "Person: Jie Zheng, Chris Stoeckert, Mike Conlon" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "elementary education" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/IAO/issues/206" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002035", - "lbl" : "primary education objective", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000407", + "lbl" : "has coordinate unit label", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "relating a cartesian spatial coordinate datum to a unit label that together with the values represent a point" ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000413", + "lbl" : "is duration of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education objective specification that has a concretization that, when realized, results in the active participant's acquisition and development of fundamental skills in reading, writing and mathematics (i.e. literacy and numeracy)." + "val" : "relates a process to a time-measurement-datum that represents the duration of the process" }, - "comments" : [ "By the end of primary education, the student has established a sound foundation for learning and solid understanding of core areas of knowledge and personal development, preparing for lower secondary education. It aims at learning at a basic level of complexity with little if any specialisation." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "primary education objective specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://uis.unesco.org/en/glossary-term/primary-education-isced-1" + "val" : "Person:Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002036", - "lbl" : "lower secondary education objective", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000417", + "lbl" : "is quality measured as", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education objective specification that has a concretization that, when realized, confers to the active participant skills and knowledge in subject areas more specialized than basic reading, writing, and mathematics, with the overall goal of laying the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities." + "val" : "inverse of the relation of is quality measurement of" }, - "comments" : [ "Examples of specific subjects could--but are not necessarily required to--include biology, history, science, literature, music, art. Programs at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects.", "Programmes at ISCED level 2, or ‘lower secondary’ education, are typically designed to build upon the fundamental teaching and learning processes which begin at ISCED level 1. Usually, the educational aim is to lay the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities. Programmes at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "lower secondary education objective specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://uis.unesco.org/en/glossary-term/lower-secondary-education-isced-2" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002037", - "lbl" : "awarding an academic degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000418", + "lbl" : "is quality specification of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A deontic document act that has as specified output an academic degree and that confers on recipient of the academic degree the recognition and the claims and obligations that accompany the degree." + "val" : "A relation between a data item and a quality of a material entity where the material entity is the specified output of a material transformation which achieves an objective specification that indicates the intended value of the specified quality." }, - "comments" : [ "Different degrees have different claims and obligations associated with them. For example, having a medical degree (either M.D. or D.O.) entitles a person to sit for stage 3 of the US Medical Licensing Exam (otherwise one may not take the exam)." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "awarding of an academic degree" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Bjoern Peters" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002038", - "lbl" : "basic education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0000419", + "lbl" : "quality is specified as", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education plan specification that has as part both a primary educational objective specification and a lower secondary educational objective specification." + "val" : "inverse of the relation of is quality specification of" }, - "comments" : [ "Most nations in the world mandate that children complete at least a basic education program. Some nations go further and include upper secondary education after basic education.", "Whole range of educational activities, taking place in various settings, that aim to meet basic learning needs as defined in the World Declaration on Education for All (Jomtien, Thailand, 1990). According to ISCED standard, basic education comprises primary education (first stage of basic education) and lower secondary education (second stage). It also covers a wide variety of non-formal and informal public and private activities intended to meet the basic learning needs of people of all ages." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "basic education plan specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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That's why we cannot say it has only lower secondary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Programmes at ISCED level 2, or ‘lower secondary’ education, are typically designed to build upon the fundamental teaching and learning processes which begin at ISCED level 1. Usually, the educational aim is to lay the foundation for lifelong learning and human development on which education systems may systematically expand further educational opportunities. Programmes at this level are usually organized around a more subject-oriented curriculum, introducing theoretical concepts across a broad range of subjects.", "Requires successful completion of a primary education program as a pre-requisite." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "lower secondary education plan specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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Programmes at this level offer students more varied, specialised and in-depth instruction than programmes at lower secondary education (ISCED level 2). They are more differentiated, with an increased range of options and streams available." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "upper secondary education objective specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://uis.unesco.org/en/glossary-term/upper-secondary-education-isced-3" + "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002041", - "lbl" : "upper secondary education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/IAO_0020012", + "lbl" : "obsolete_designates", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An education plan specification with one or more upper secondary education objective specifications as parts, and these are the only objective specifications it has as parts." + "val" : "x designates y, if for any given group of language users, x is an information content entity, is about y, and represents y in a linguistic context.." }, - "comments" : [ "It can still have action specifications as parts, and possibly other ICEs as parts. That's why we cannot say it has only lower secondary education objectives as parts, and we have to introduce the double negative in the class axiom.", "Programmes at ISCED level 3, or ‘upper secondary’ education, are typically designed to complete secondary education in preparation for tertiary education, or to provide skills relevant to employment, or both. Programmes at this level offer students more varied, specialised and in-depth instruction than programmes at lower secondary education (ISCED level 2). They are more differentiated, with an increased range of options and streams available.", "Requires successful completion of a lower secondary education program as a pre-requisite." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "upper secondary education plan specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000228" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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For example, auto mechanics, plumbers, and electricians." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "vocational education objective specification" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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After the declaration nothing is left of the socio-legal generically dependent continuant in question." }, - "comments" : [ "This data item in a typical attribute-value system such as table, XML, JSON takes values like \"secondary education\", \"Associate Degree\", \"Bachelor Degree\", \"High School\", and so on." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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Successful completion of such programs leads to labor market-relevant, vocational qualifications acknowledged as occupationally-oriented by the relevant national authorities and/or the labor market." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "vocational education plan specification" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Mathias Brochhausen" }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000103" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OBIB_0000732", + "lbl" : "owns", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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This relation is the foundation to the owners right to have the owned entity at his/her full disposal." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002047", - "lbl" : "kindergarten education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBIB_0000735", + "lbl" : "is owned by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A primary education plan specification that specifies the competencies and information content entities that should be acquired by students in the first year of primary education in the United States." + "val" : "a is owned by b if b has complete power over a. All rights and obligations of ownership are grounded in this (primitive) relation. The claims and obligations of ownership can be partially transferred to a third party by the owner, b." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "kindergarten education plan specification" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" - }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T12:38:43Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Reinach, A. Sämtliche Werke. Texkritische Ausgabe, München: Philosophia Verlag, 1989, p.189-204." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002048", - "lbl" : "undergraduate higher education program", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBI_0000293", + "lbl" : "has_specified_input", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A higher education plan specification that specifies the awarding of an associates or bachelors degree in the United States or equivalent degrees in other nations, and specifies as a pre-requisite the completion of some secondary education program." + "val" : "The inverse property of is_specified_input_of" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "undergraduate higher education plan specification" + "val" : "has_specified_input" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has_specified_input" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "see is_input_of example_of_usage" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. 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To distinguish MS/PhD from the professional ones, subclass this class.", "The prerequisite degree is at the bachelors level or equivalent. An associates degree is almost never sufficient for entry into graduate education programs." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "graduate higher education plan specification" + "val" : "has_specified_output" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "graduate education program" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has_specified_output" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:01:34Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Larry Hunter" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002050", - "lbl" : "highest level of education is grades 1 through 6 data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBI_0000312", + "lbl" : "is_specified_output_of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of first through sixth grade." + "val" : "A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of." }, - "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of primary education in the United States." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of grades one through six socio-economic data item" + "val" : "is_specified_output_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is_specified_output_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "Alan Ruttenberg" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Bjoern Peters" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:23:46Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002051", - "lbl" : "highest level of education is grades 7 through 9 data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBI_0000846", + "lbl" : "is member of organization", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of seventh (7th) through ninth (9th) grade." + "val" : "Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization." }, - "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of lower secondary education in the United States." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of grades seven through nine socio-economic data item" + "val" : "is member of organization" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000120" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2009/10/01 Alan Ruttenberg. Barry prefers generic is-member-of. Question of what the range should be. For now organization. Is organization a population? Would the same relation be used to record members of a population" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "JZ: Discussed on May 7, 2012 OBI dev call. Bjoern points out that we need to allow for organizations to be members of organizations. And agreed by the other OBI developers. So, human and organization were specified in 'Domains'. The textual definition was updated based on it." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "val" : "Person:Alan Ruttenberg" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Helen Parkinson" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:27:15Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Helen Parkinson" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002052", - "lbl" : "highest level of education is grades 10 through 12 data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OBI_0001688", + "lbl" : "has organization member", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of tenth (10th) through twelfth (12th) grade." + "val" : "Relating an organization to a legal person or organization." }, - "comments" : [ "Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of upper secondary education in the United States." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of grades ten through twelve socio-economic data item" + "val" : "has organization member" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000123" }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "See tracker:\nhttps://sourceforge.net/tracker/index.php?func=detail&aid=3512902&group_id=177891&atid=886178" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:27:50Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person: Jie Zheng" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002053", - "lbl" : "highest level of education is completion of undergraduate degree data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000008", + "lbl" : "obsolete owns", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some undergraduate degree." - }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of some undergraduate degree socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:28:27Z" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000732" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002054", - "lbl" : "highest level of education is completion of graduate certificate or degree data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000009", + "lbl" : "obsolete administrates", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some graduate certificate or degree." - }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of some graduate degree socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "val" : "Mathias Brochhausen" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:28:49Z" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000733" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002055", - "lbl" : "highest level of education is completion of vocaational education program data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMIABIS_0000048", + "lbl" : "obsolete is owned by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some vocational education program." - }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of some vocational education program socio-economic data item" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Reinach, A. S�mtliche Werke. Texkritische Ausgabe, M�nchen: Philosophia Verlag, 1989, p.189-204." }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:29:28Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/OBIB_0000735" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002056", - "lbl" : "highest level of education is completion of kindergarten data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000020", + "lbl" : "obsolete is-aggregate-of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "We anticipate BFO 2.0 including and defining this relation. When it does, we will obsolete this property and declare it equivalent to the BFO 2.0 relation.\n" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "BFO relation takes precedence." + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000021", + "lbl" : "obsolete is-component-of-aggregate", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "At the instance level, this relation is the named inverse of is-aggregate-of.\n\nAt the type level, however, not so.\n\nWe expect BFO 2.0 to have this relation as well, and we will obsolete this property and declare it equivalent to BFO's version when BFO 2.0 comes out." ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000068", + "lbl" : "is administered by", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000070", + "lbl" : "is enrolled in school", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000071", + "lbl" : "is admitted to hospital", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000167", + "lbl" : "provides service", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000247", + "lbl" : "is abuse of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is pre-kindergarten." + "val" : "Relation between an abusive behavior and one upon whom it is inflicted." }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates that a person has completed only early childhood education and nothing more." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of kindergarten socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:47:38Z" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002057", - "lbl" : "highest level of education is completion of pre-kindergarten data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000248", + "lbl" : "has aggressor", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is kindergarten." + "val" : "Relation between an abusive behavior and one who inflicts it upon someone or something else." }, - "comments" : [ "Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "highest level of education is completion of pre-kindergarten socio-economic data item" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.org/dc/elements/1.1/creator", - "val" : "http://orcid.org/0000-0002-9881-1017" + "val" : "Matthew Diller" }, { - "pred" : "http://purl.org/dc/elements/1.1/date", - "val" : "2020-09-02T13:48:10Z" + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "S. Clint Dowland" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002058", - "lbl" : "linguistic literacy competence", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000260", + "lbl" : "lives in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A disposition borne by a human being that (1) has a linguistic competence as a dispositional part and (2) if realized, is realized by the bearer's achievement of some personal goal." + "val" : "A relation between a household and a material entity that the household stores their possessions in and sleeps in habitually." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000263", + "lbl" : "demarcates", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "definition" : { + "val" : "Relation in which a categorization scheme stands to each category into which it partitions things." }, - "comments" : [ "Other dispositions that it can and likely does have as dispositional parts include cultural competencies, interpersonal competencies, competencies for navigating a society's systems of laws, claims, obligations, deontic declarations, and norms of financial and other economic exchange.", "The realization of this disposition by definition realizes the bearer's linguistic competence that is a dispositional part of this disposition. The realization of the linguistic competence would be an occurrent part of the realization of this disposition (and not a temporal part).", "Whereas linguistic competence may be afforded to non-human agents, literacy is nearly always considered in the context of human beings." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "language literacy competence" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "human literacy" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "linguistic literacy" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Jiang Bian" + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Xi Yang" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Yonghui Wu" + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002059", - "lbl" : "caregiver role", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000264", + "lbl" : "demarcated by", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A human social role that, if realized, is realized in providing assistance in the activities of daily living of another human being who possesses reduced capability to complete some of these activities alone." + "val" : "Relation in which a category stands to the categorization scheme that demarcates it as a category." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John Judkins" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" @@ -16003,20 +15147,17 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002060", - "lbl" : "family relationship", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000272", + "lbl" : "has primary data subject", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relational quality that inheres within two or more persons related as members of a domestic group, or a number of domestic groups linked through descent from a common ancestor, marriage, or adoption." + "val" : "Relation in which a data item stands to the person it is both about and primarily associated with." }, - "comments" : [ "We are also intending on including other family arrangements. This is something we are working on." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ERO_0002033" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "John Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "S. Clint Dowland" @@ -16026,6761 +15167,17495 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002061", - "lbl" : "monetary personal income data item", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000273", + "lbl" : "primary data subject of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A data item that is about the sum of earnings for some person(s) from various forms of payment or profits." + "val" : "The inverse of has primary data subject." }, - "comments" : [ "We use the phrase ‘some person’ in the definition because this class can be about an individual's or a household's earnings. Similarly, we use 'personal income' in the label because the term is typically restricted to individuals and households. This class is also restricted to being about monetary forms of income." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Examples of monetary forms of payment include: wages, salary, or tips; interest generated by capital; dividends earned; lottery, game, or contest monetary winnings; alimony; royalties; trusts; pensions; receipt of rental payments; unemployment payments; social security payments; worker's compensation; social security payments; or profit from entrepreneurial activities." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Chris Stoeckert" + "val" : "S. Clint Dowland" + }, { + "pred" : "http://purl.org/dc/elements/1.1/contributor", + "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002062", - "lbl" : "concretization-utilization process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000275", + "lbl" : "has reporter", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Process in which some participant utilizes some specifically dependent continuant as a concretization of some generically dependent continuant." + "val" : "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." }, - "comments" : [ "Instances include any process that brings it about that some specifically dependent continuant begins to stand in a concretization relation to some generically dependent continuant, as well as any process in which someone makes use of a pre-established concretization relation. To be clear, instances do not include using concretizations of words or letters for purposes that do not make use of the concretization relations in which they stand (for example, hanging up a sign in a foreign language as a decoration because one likes the colors, despite having no idea what the sign says).", "Instances include, but are not limited to, processes that bring about cognitive concretizations." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Taking notes on a meeting is an example in which the concretization relation is newly established, since the SDCs that concretize the GDCs come into existence as the notes are written. In contrast, using slides prepared by someone else in order to convey information during a presentation is a case of using a concretization in which the performer neither brings the concretizing SDCs into existence nor is responsible for their standing in the concretization relation to the relevant GDCs. A nonlinguistic example is drawing the logo of one’s favorite brand, in which one creates a pattern that concretizes a GDC that is also concretized by patterns on products of the brand." - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002063", - "lbl" : "linguistic concretization-utilization process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000276", + "lbl" : "reporter of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A concretization-utilization process in which the utilized specifically dependent continuant concretizes the generically dependent through use of some language." + "val" : "The inverse of has reporter." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" - }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "Matthew Diller" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "val" : "S. Clint Dowland" }, { "pred" : "http://purl.org/dc/elements/1.1/contributor", "val" : "William R. Hogan" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002064", - "lbl" : "concretization-interpretation process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000052", + "lbl" : "characteristic of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Process in which some participant infers that some particular specifically dependent continuant stands in the concretization relation to some particular generically dependent continuant." + "val" : "a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence." }, - "comments" : [ "The interpretation need not be accurate. It may even be the case that the specifically dependent continuant has not previously concretized anything." ], + "comments" : [ "Note that this relation was previously called \"inheres in\", but was changed to be called \"characteristic of\" because BFO2 uses \"inheres in\" in a more restricted fashion. This relation differs from BFO2:inheres_in in two respects: (1) it does not impose a range constraint, and thus it allows qualities of processes, as well as of information entities, whereas BFO2 restricts inheres_in to only apply to independent continuants (2) it is declared functional, i.e. something can only be a characteristic of one thing." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "For example, reading a text message that says, “It is raining outside,” and inferring that the words on the screen are meant to convey information about the weather. The pattern on the screen that corresponds to the words is the SDC, and the ICE about the rain is the GDC. Or, hearing your spouse say, “Can you come to the kitchen?” and then knowing that your spouse wants you to come to the kitchen. You have interpreted the patterns of the sound as concretizing a GDC about what your spouse wants. Or, seeing a drawing of a basketball player and inferring—perhaps incorrectly—that it is of Michael Jordan." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "inheres in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this fragility is a characteristic of this vase" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this red color is a characteristic of this apple" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "inheres_in" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002065", - "lbl" : "linguistic concretization-interpretation process", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000053", + "lbl" : "has characteristic", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A concretization-interpretation process in which the specifically dependent continuant is inferred to concretize the generically dependent continuant in a way that makes use of some language." + "val" : "Inverse of characteristic_of" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "bearer of" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this apple is bearer of this red color" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Sarah Bost" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this vase is bearer of this fragility" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "bearer_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is bearer of" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002066", - "lbl" : "linguistic competence", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000056", + "lbl" : "participates in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A disposition that inheres in some material entity and is such that that, if realized, it is realized by either some linguistic concretization-utilization process or some linguistic concretization-interpretation process." + "val" : "a relation between a continuant and a process, in which the continuant is somehow involved in the process" }, - "comments" : [ "When realized in a concretization-utilization process, the only relevant concretization may in some cases be a cognitive one, but that suffices to realize a linguistic competence. For example, suppose one begins to write a letter, planning out the words ahead of time, but is interrupted before beginning to write and never resumes. During the process of planning out the words and what one intends to communicate, one is already concretizing words cognitively, as well as considering which combinations of words one can use to concretize additional generically dependent continuants. In doing so, one performs processes that realize one's linguistic competence, without producing any concretizations other than those cognitive ones." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "participates in" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this blood clot participates in this blood coagulation" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this input material (or this output material) participates in this process" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigator participates in this investigation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "participates_in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002068", - "lbl" : "communication", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000057", + "lbl" : "has_participant", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A process in which some participant shares some generically dependent continuant with some other participant. The former utilizes some specifically dependent continuant that concretizes the generically dependent continuant intended to be shared, while the latter interprets that specifically dependent continuant to concretize some particular generically dependent continuant, aiming to accurately infer the other participant’s intent." + "val" : "a relation between a process and a continuant, in which the continuant is somehow involved in the process" }, - "comments" : [ "For example, if you tell someone, “It is raining,” you produce sounds that have patterns that concretize information about the weather. Your utilization of that concretization is part of the communication. When the other person hears you, they interpret those patterns to concretize something, which may or may not be the same as what you intended to convey. In other words, they interpret the sounds you produce to have meanings associated with them, and that interpretation process is another part of the communication. If a process does not have a part of each type, it is not a communication.", "The interpretation need not correspond exactly to what was intended by the other participant.", "The term 'participant' in the definition need not refer to a human agent." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has participant" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this blood coagulation has participant this blood clot" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigation has participant this investigator" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this process has participant this input material (or this output material)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_participant" + }, { + "pred" : "http://purl.org/dc/elements/1.1/source", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:has_participant" + }, { + "pred" : "http://purl.org/dc/terms/source", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:has_participant" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002069", - "lbl" : "language", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000058", + "lbl" : "is concretized as", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A disposition that (i) is an aggregate of linguistic competences, considered as forming a distinct group on the basis of perceived common characteristics, such as mutual intelligibility among their bearers, in addition to historical or cultural factors; (ii) if realized, is realized in any and all realizations of those linguistic competences; and (iii) inheres in a linguistic community." + "val" : "A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is concretized as" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The journal article (a generically dependent continuant) is concretized as the quality (a specifically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002070", - "lbl" : "disclosure of preferred language", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000059", + "lbl" : "concretizes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A communication in which some participant states a preference for some communicative process to be in a certain language, via some concretization of some preferred language information content entity." + "val" : "A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "concretizes" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/obi.owl" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002071", - "lbl" : "preferred language information content entity", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000079", + "lbl" : "function of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An information content entity that is about some person and some language, and that conveys the language with which that person prefers to communicate within some given context." + "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" }, + "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this catalysis function is a function of this enzyme" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "S. Clint Dowland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "function_of" }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "William R. Hogan" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is function of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OMRSE_00002072", - "lbl" : "role in human social processes", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000080", + "lbl" : "quality of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A role that inheres in some entity that is realized in a social act." + "val" : "a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence" }, - "comments" : [ "Previous definition: A role played by an entity in human social processes." ], + "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Matthew Diller" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this red color is a quality of this apple" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/omrse/releases/2023-10-08/omrse.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A quality inheres in its bearer at all times for which the quality exists." }, { - "pred" : "http://purl.org/dc/elements/1.1/contributor", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is quality of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "quality_of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000030", - "lbl" : "OOSTT user-centered description", + "id" : "http://purl.obolibrary.org/obo/RO_0000081", + "lbl" : "role of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A description of an OOSTT class that is aimed at the OOSTT user community and not meant to be definition for use in ontology development, curation or maintenance." + "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" }, + "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this investigator role is a role of this person" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is role of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "role_of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000074", - "lbl" : "academic degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000085", + "lbl" : "has function", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An information content entity that is the specified outcome of and documents the sucessful completion of a tertiary education program." + "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." }, { - "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", - "val" : "Recognized degree awarded after successful completion of a college or post-graduate porgram." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_function" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000081", - "lbl" : "associate degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000086", + "lbl" : "has quality", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree awarded by colleges and universities upon completion of a program of study lasting two years." + "val" : "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this apple has quality this red color" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/w/index.php?title=Associate_degree&oldid=723897149" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." }, { - "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", - "val" : "Recognition awarded after completion of a specific curriculum from an accredited tertiary education provider that falls between high school and bachelor's degree program." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_quality" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000082", - "lbl" : "master's degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000087", + "lbl" : "has role", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree awarded by universities upon completion of a course of study demonstrating a mastery or high-order overview of a specific field of study or area of professional practice.[1] Within the area studied, graduates are posited to possess advanced knowledge of a specialized body of theoretical and applied topics; high order skills in analysis, critical evaluation, or professional application; and the ability to solve complex problems and think rigorously and independently." + "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this person has role this investigator role (more colloquially: this person has this role of investigator)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/w/index.php?title=Master%27s_degree&oldid=726036185" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has_role" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000083", - "lbl" : "bachelor's degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000091", + "lbl" : "has disposition", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree awarded by colleges and universities upon completion of a course of study lasting three to seven years." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/w/index.php?title=Bachelor%27s_degree&oldid=725713923" - } ] + "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" + } } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000084", - "lbl" : "bachelor's of nursing degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0000092", + "lbl" : "disposition of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree in the science and principles of nursing, granted by an accredited tertiary education provider after the successful completion of a bachelor's of nursing program." + "val" : "inverse of has disposition" }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "https://en.wikipedia.org/w/index.php?title=Bachelor_of_Science_in_Nursing&oldid=725962822" - } ] + "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], + "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] } }, { - "id" : "http://purl.obolibrary.org/obo/OOSTT_00000086", - "lbl" : "master's in the science of nursing degree", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0001000", + "lbl" : "derives from", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An academic degree in the science and principles of nursing, granted by an accredited tertiary education provider after the successful completion of a master's of nursing program." + "val" : "a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "John Judkins" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this cell derives from this parent cell (cell division)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Mathias Brochhausen" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this nucleus derives from this parent nucleus (nuclear division)" }, { - "pred" : "http://purl.obolibrary.org/obo/OOSTT_00000030", - "val" : "An advanced academic degree in the principles and practices of nursing, with a focus on administration, education, or advanced nursing practice, granted by an accredited college or university after the successful completion of a master's of nursing program." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "derives_from" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0000001", - "lbl" : "quality", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities", - "xrefs" : [ "PATOC:GVG" ] - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0000051", - "lbl" : "morphology", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0001001", + "lbl" : "derives into", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure." + "val" : "a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "morphology" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this parent cell derives into this cell (cell division)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this parent nucleus derives into this nucleus (nuclear division)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops into'. To avoid making statements about a future that may not come to pass, it is often better to use the backward-looking 'derives from' rather than the forward-looking 'derives into'." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "derives_into" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0000122", - "lbl" : "length", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0001015", + "lbl" : "location of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A 1-D extent quality which is equal to the distance between two points." + "val" : "a relation between two independent continuants, the location and the target, in which the target is entirely within the location" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "length" + "val" : "is location of" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my head is the location of my brain" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this cage is the location of this rat" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "location_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0000125", - "lbl" : "mass", - "type" : "CLASS", + "id" : "http://purl.obolibrary.org/obo/RO_0001025", + "lbl" : "located in", + "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter." + "val" : "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "mass" + "val" : "located in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0001018", - "lbl" : "physical quality", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "physical quality" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "my brain is located in my head" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0001025", - "lbl" : "pressure", - "type" : "CLASS", - "meta" : { - "subsets" : [ "http://purl.org/obo/owl/obo#attribute_slim" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasDefinition", - "val" : "_:genid2147485205" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "this rat is located in this cage" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasDefinition", - "val" : "_:genid2147485206" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "quality" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/PATO_0001241", - "lbl" : "physical object quality", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A quality which inheres in a continuant." - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "physical object quality" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/pato.owl" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/PCO_0000020", - "lbl" : "family", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A domestic group, or a number of domestic groups linked through descent (demonstrated or stipulated) from a common ancestor, marriage, or adoption." - }, - "comments" : [ "Family membership through marriage or adoption apply primarily to human families. In most species, family membership is defined by common anscestry." ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000123" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "located_in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Needs axioms for family relationships." + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C25173" + "pred" : "http://purl.org/dc/elements/1.1/source", + "val" : "http://www.obofoundry.org/ro/#OBO_REL:located_in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000052", - "lbl" : "characteristic of", + "id" : "http://purl.obolibrary.org/obo/RO_0002000", + "lbl" : "2D boundary of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence." + "val" : "a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity" }, - "comments" : [ "Note that this relation was previously called \"inheres in\", but was changed to be called \"characteristic of\" because BFO2 uses \"inheres in\" in a more restricted fashion. This relation differs from BFO2:inheres_in in two respects: (1) it does not impose a range constraint, and thus it allows qualities of processes, as well as of information entities, whereas BFO2 restricts inheres_in to only apply to independent continuants (2) it is declared functional, i.e. something can only be a characteristic of one thing." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "inheres in" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this fragility is a characteristic of this vase" + "val" : "the surface of my skin is a 2D boundary of my body" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this red color is a characteristic of this apple" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "inheres_in" + "val" : "2D_boundary_of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "boundary of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is 2D boundary of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is boundary of" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000053", - "lbl" : "has characteristic", + "id" : "http://purl.obolibrary.org/obo/RO_0002002", + "lbl" : "has 2D boundary", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Inverse of characteristic_of" + "val" : "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "bearer of" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this apple is bearer of this red color" + "val" : "my body has 2D boundary the surface of my skin" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this vase is bearer of this fragility" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." + "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "bearer_of" + "val" : "has boundary" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is bearer of" + "val" : "has_2D_boundary" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000056", - "lbl" : "participates in", + "id" : "http://purl.obolibrary.org/obo/RO_0002012", + "lbl" : "occurrent part of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a continuant and a process, in which the continuant is somehow involved in the process" - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "participates in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this blood clot participates in this blood coagulation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this input material (or this output material) participates in this process" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigator participates in this investigation" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "participates_in" - } ] + "val" : "A part of relation that applies only between occurrents." + } } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000057", - "lbl" : "has_participant", + "id" : "http://purl.obolibrary.org/obo/RO_0002013", + "lbl" : "has regulatory component activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a process and a continuant, in which the continuant is somehow involved in the process" + "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "has participant" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this blood coagulation has participant this blood clot" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigation has participant this investigator" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this process has participant this input material (or this output material)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_participant" - }, { - "pred" : "http://purl.org/dc/elements/1.1/source", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:has_participant" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.org/dc/terms/source", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:has_participant" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:30:46Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000058", - "lbl" : "is concretized as", + "id" : "http://purl.obolibrary.org/obo/RO_0002014", + "lbl" : "has negative regulatory component activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants." + "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." }, + "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is concretized as" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The journal article (a generically dependent continuant) is concretized as the quality (a specifically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:31:01Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000059", - "lbl" : "concretizes", + "id" : "http://purl.obolibrary.org/obo/RO_0002015", + "lbl" : "has positive regulatory component activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant." + "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." }, + "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "concretizes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", - "val" : "http://purl.obolibrary.org/obo/obi.owl" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:31:17Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000079", - "lbl" : "function of", + "id" : "http://purl.obolibrary.org/obo/RO_0002017", + "lbl" : "has component activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], + "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this catalysis function is a function of this enzyme" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "function_of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is function of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:44:33Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000080", - "lbl" : "quality of", + "id" : "http://purl.obolibrary.org/obo/RO_0002018", + "lbl" : "has component process", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence" + "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this red color is a quality of this apple" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A quality inheres in its bearer at all times for which the quality exists." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is quality of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "quality_of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-05-24T09:49:21Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000081", - "lbl" : "role of", + "id" : "http://purl.obolibrary.org/obo/RO_0002022", + "lbl" : "directly regulated by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], + "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this investigator role is a role of this person" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is role of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "role_of" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-17T13:52:24Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000085", - "lbl" : "has function", + "id" : "http://purl.obolibrary.org/obo/RO_0002023", + "lbl" : "directly negatively regulated by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" + "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1.", + "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_function" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-17T13:52:38Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000086", - "lbl" : "has quality", + "id" : "http://purl.obolibrary.org/obo/RO_0002024", + "lbl" : "directly positively regulated by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence" + "val" : "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1.", + "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this apple has quality this red color" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_quality" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-17T13:52:47Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000087", - "lbl" : "has role", + "id" : "http://purl.obolibrary.org/obo/RO_0002025", + "lbl" : "has effector activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" + "val" : "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity.", + "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] }, + "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this person has role this investigator role (more colloquially: this person has this role of investigator)" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-22T14:14:36Z" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002081", + "lbl" : "before or simultaneous with", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "Primitive instance level timing relation between events" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_role" + "val" : "<=" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000091", - "lbl" : "has disposition", + "id" : "http://purl.obolibrary.org/obo/RO_0002083", + "lbl" : "before", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" - } + "comments" : [ "t1 before t2 iff:= t1 before_or_simulataneous_with t2 and not (t1 simultaeous_with t2)" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0000092", - "lbl" : "disposition of", + "id" : "http://purl.obolibrary.org/obo/RO_0002086", + "lbl" : "ends after", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "inverse of has disposition" - }, - "comments" : [ "This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020." ], - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ] + "comments" : [ "X ends_after Y iff: end(Y) before_or_simultaneous_with end(X)" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001000", - "lbl" : "derives from", + "id" : "http://purl.obolibrary.org/obo/RO_0002087", + "lbl" : "immediately preceded by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" - }, + "comments" : [ "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this cell derives from this parent cell (cell division)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this nucleus derives from this parent nucleus (nuclear division)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "starts_at_end_of" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002090", + "lbl" : "immediately precedes", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "comments" : [ "X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "ends_at_start_of" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "derives_from" + "val" : "meets" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002575", + "val" : "http://purl.obolibrary.org/obo/BFO_0000063" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001001", - "lbl" : "derives into", + "id" : "http://purl.obolibrary.org/obo/RO_0002131", + "lbl" : "overlaps", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity" + "val" : "x overlaps y if and only if there exists some z such that x has part z and z part of y" }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this parent cell derives into this cell (cell division)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this parent nucleus derives into this nucleus (nuclear division)" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops into'. To avoid making statements about a future that may not come to pass, it is often better to use the backward-looking 'derives from' rather than the forward-looking 'derives into'." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", + "val" : "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "derives_into" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001015", - "lbl" : "location of", + "id" : "http://purl.obolibrary.org/obo/RO_0002180", + "lbl" : "has component", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between two independent continuants, the location and the target, in which the target is entirely within the location" + "val" : "w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "is location of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my head is the location of my brain" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this cage is the location of this rat" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" + "val" : "The definition of 'has component' is still under discussion. The challenge is in providing a definition that does not imply transitivity." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "location_of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "For use in recording has_part with a cardinality constraint, because OWL does not permit cardinality constraints to be used in combination with transitive object properties. In situations where you would want to say something like 'has part exactly 5 digit, you would instead use has_component exactly 5 digit." }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://ontologydesignpatterns.org/wiki/Submissions:Componency" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001025", - "lbl" : "located in", + "id" : "http://purl.obolibrary.org/obo/RO_0002211", + "lbl" : "regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" + "val" : "p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q." }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", - "val" : "located in" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0001-7476-6306" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my brain is located in my head" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-3837-8864" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "this rat is located in this cage" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GO" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "located_in" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Regulation precludes parthood; the regulatory process may not be within the regulated process." }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "regulates (processual)" }, { - "pred" : "http://purl.org/dc/elements/1.1/source", - "val" : "http://www.obofoundry.org/ro/#OBO_REL:located_in" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "false" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0001900", - "lbl" : "temporal interpretation", + "id" : "http://purl.obolibrary.org/obo/RO_0002212", + "lbl" : "negatively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context." - } + "val" : "p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "negatively regulates (process to process)" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002211" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002000", - "lbl" : "2D boundary of", + "id" : "http://purl.obolibrary.org/obo/RO_0002213", + "lbl" : "positively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity" + "val" : "p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q." }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "the surface of my skin is a 2D boundary of my body" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "2D_boundary_of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "boundary of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is 2D boundary of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is boundary of" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "positively regulates (process to process)" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002211" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002002", - "lbl" : "has 2D boundary", + "id" : "http://purl.obolibrary.org/obo/RO_0002215", + "lbl" : "capable of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" + "val" : "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "my body has 2D boundary the surface of my skin" + "val" : "mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "osteoclast SubClassOf 'capable of' some 'bone resorption'" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has boundary" + "val" : "has function realized in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has_2D_boundary" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.ncbi.nlm.nih.gov/pubmed/20123131" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://www.ncbi.nlm.nih.gov/pubmed/21208450" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "For compatibility with BFO, this relation has a shortcut definition in which the expression \"capable of some P\" expands to \"bearer_of (some realized_by only P)\"." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002012", - "lbl" : "occurrent part of", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "A part of relation that applies only between occurrents." - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002013", - "lbl" : "has regulatory component activity", + "id" : "http://purl.obolibrary.org/obo/RO_0002216", + "lbl" : "capable of part of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." + "val" : "c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p." }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:30:46Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has function in" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ro/docs/reflexivity/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002014", - "lbl" : "has negative regulatory component activity", + "id" : "http://purl.obolibrary.org/obo/RO_0002217", + "lbl" : "obsolete actively participates in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." + "val" : "OBSOLETE x actively participates in y if and only if x participates in y and x realizes some active role" }, - "comments" : [ "By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'." ], + "comments" : [ "Obsoleted as the inverse property was obsoleted." ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:01Z" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "agent in" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/RO_0002608" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002015", - "lbl" : "has positive regulatory component activity", + "id" : "http://purl.obolibrary.org/obo/RO_0002218", + "lbl" : "obsolete has active participant", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." + "val" : "x has participant y if and only if x realizes some active role that inheres in y" }, - "comments" : [ "By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'." ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "'heart development' has active participant some Shh protein" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:31:17Z" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This may be obsoleted and replaced by the original 'has agent' relation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has agent" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000412", + "val" : "http://purl.obolibrary.org/obo/ro.owl" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", + "val" : "http://purl.obolibrary.org/obo/RO_0002500" + } ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002017", - "lbl" : "has component activity", + "id" : "http://purl.obolibrary.org/obo/RO_0002222", + "lbl" : "temporally related to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B." ], + "comments" : [ "A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations." ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:44:33Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "https://en.wikipedia.org/wiki/Allen%27s_interval_algebra" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." + }, { + "pred" : "http://purl.org/dc/terms/source", + "val" : "https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002018", - "lbl" : "has component process", + "id" : "http://purl.obolibrary.org/obo/RO_0002223", + "lbl" : "starts", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." + "val" : "inverse of starts with" }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-05-24T09:49:21Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Allen" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002022", - "lbl" : "directly regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002224", + "lbl" : "starts with", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." ], + "definition" : { + "val" : "x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-17T13:52:24Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "started by" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002023", - "lbl" : "directly negatively regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002229", + "lbl" : "ends", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). 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Each compound function has only one effector activity.", - "xrefs" : [ "https://orcid.org/0000-0002-7073-9172" ] + "val" : "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" }, - "comments" : [ "This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations." ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-09-22T14:14:36Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "starts with process that occurs in" } ] } }, { - 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"lbl" : "before", + "id" : "http://purl.obolibrary.org/obo/RO_0002233", + "lbl" : "has input", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "t1 before t2 iff:= t1 before_or_simulataneous_with t2 and not (t1 simultaeous_with t2)" ], - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "definition" : { + "val" : "p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "consumes" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Has_input" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002086", - "lbl" : "ends after", + "id" : "http://purl.obolibrary.org/obo/RO_0002234", + "lbl" : "has output", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "X ends_after Y iff: end(Y) before_or_simultaneous_with end(X)" ], - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "definition" : { + "val" : "p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "produces" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Has_output" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002087", - "lbl" : "immediately preceded by", + "id" : "http://purl.obolibrary.org/obo/RO_0002263", + "lbl" : "acts upstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" ], + "definition" : { + "val" : "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "starts_at_end_of" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://wiki.geneontology.org/index.php/Acts_upstream_of" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002090", - "lbl" : "immediately precedes", + "id" : "http://purl.obolibrary.org/obo/RO_0002264", + "lbl" : "acts upstream of or within", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "comments" : [ "X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)" ], - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "definition" : { + "val" : "c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "affects" + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - 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"val" : "x overlaps y if and only if there exists some z such that x has part z and z part of y" + "val" : "p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "comments" : [ "holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002411" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", - "val" : "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)" + "pred" : "http://purl.org/dc/terms/creator", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Causally_upstream_of,_positive_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002180", - "lbl" : "has component", + "id" : "http://purl.obolibrary.org/obo/RO_0002305", + "lbl" : "causally upstream of, negative effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." + "val" : "p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The definition of 'has component' is still under discussion. The challenge is in providing a definition that does not imply transitivity." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "For use in recording has_part with a cardinality constraint, because OWL does not permit cardinality constraints to be used in combination with transitive object properties. In situations where you would want to say something like 'has part exactly 5 digit, you would instead use has_component exactly 5 digit." + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002411" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.org/dc/terms/creator", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:Componency" + "val" : "https://wiki.geneontology.org/Causally_upstream_of,_negative_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002211", - "lbl" : "regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002314", + "lbl" : "characteristic of part of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q." + "val" : "q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0001-7476-6306" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-3837-8864" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "inheres in part of" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "GO" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Regulation precludes parthood; the regulatory process may not be within the regulated process." + "val" : "http://www.ncbi.nlm.nih.gov/pubmed/20064205" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "regulates (processual)" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", - "val" : "false" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ro/docs/reflexivity/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002212", - "lbl" : "negatively regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002323", + "lbl" : "mereotopologically related to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q." + "val" : "A mereological relationship or a topological relationship" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "negatively regulates (process to process)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002211" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002213", - "lbl" : "positively regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002327", + "lbl" : "enables", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q." + "val" : "c enables p iff c is capable of p and c acts to execute p." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "a particular instances of akt-2 enables some instance of protein kinase activity" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "catalyzes" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "positively regulates (process to process)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "executes" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002211" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "has" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is catalyzing" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "is executing" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This relation differs from the parent relation 'capable of' in that the parent is weaker and only expresses a capability that may not be actually realized, whereas this relation is always realized." + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Enables" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002215", - "lbl" : "capable of", + "id" : "http://purl.obolibrary.org/obo/RO_0002328", + "lbl" : "functionally related to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. 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"val" : "For compatibility with BFO, this relation has a shortcut definition in which the expression \"capable of some P\" expands to \"bearer_of (some realized_by only P)\"." + "val" : "This is a grouping relation that collects relations used for the purpose of connecting structure and function" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002216", - "lbl" : "capable of part of", + "id" : "http://purl.obolibrary.org/obo/RO_0002329", + "lbl" : "part of structure that is capable of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p." + "val" : "this relation holds between c and p when c is part of some c', and c' is capable of p." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has function in" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/reflexivity/" + "val" : "false" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002217", - "lbl" : "obsolete actively participates in", + "id" : "http://purl.obolibrary.org/obo/RO_0002331", + "lbl" : "involved in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "OBSOLETE x actively participates in y if and only if x participates in y and x realizes some active role" + "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" }, - "comments" : [ "Obsoleted as the inverse property was obsoleted." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "agent in" + "val" : "actively involved in" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "http://purl.obolibrary.org/obo/RO_0002608" - } ], - "deprecated" : true + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "enables part of" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Involved_in" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002218", - "lbl" : "obsolete has active participant", + "id" : "http://purl.obolibrary.org/obo/RO_0002333", + "lbl" : "enabled by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "x has participant y if and only if x realizes some active role that inheres in y" + "val" : "inverse of enables" }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "'heart development' has active participant some Shh protein" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - 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"comments" : [ "A relation that holds between two occurrents. 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Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." + "val" : "has member is a mereological relation between a collection and an item." }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "SIO" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "finished by" + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002231", - "lbl" : "has start location", + "id" : "http://purl.obolibrary.org/obo/RO_0002352", + "lbl" : "input of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" + "val" : "inverse of has input" }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "starts with process that occurs in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002232", - "lbl" : "has end location", + "id" : "http://purl.obolibrary.org/obo/RO_0002353", + "lbl" : "output of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" + "val" : "inverse of has output" }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "ends with process that occurs in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002233", - "lbl" : "has input", + "id" : "http://purl.obolibrary.org/obo/RO_0002404", + "lbl" : "causally downstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p." + "val" : "inverse of upstream of" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002405", + "lbl" : "immediately causally downstream of", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "consumes" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Has_input" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002234", - "lbl" : "has output", + "id" : "http://purl.obolibrary.org/obo/RO_0002407", + "lbl" : "indirectly positively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p." + "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "produces" + "val" : "indirectly activates" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002579", + "val" : "http://purl.obolibrary.org/obo/RO_0002213" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Has_output" + "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002263", - "lbl" : "acts upstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002409", + "lbl" : "indirectly negatively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." + "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "indirectly inhibits" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002579", + "val" : "http://purl.obolibrary.org/obo/RO_0002212" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://wiki.geneontology.org/index.php/Acts_upstream_of" + "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002264", - "lbl" : "acts upstream of or within", + "id" : "http://purl.obolibrary.org/obo/RO_0002410", + "lbl" : "causally related to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process." + "val" : "relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause.", + "xrefs" : [ "https://en.wikipedia.org/wiki/Causality" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "affects" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A gene product that has some activity, where that activity may be a part of a pathway or upstream of the pathway." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative?\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002304", - "lbl" : "causally upstream of, positive effect", + "id" : "http://purl.obolibrary.org/obo/RO_0002411", + "lbl" : "causally upstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q." + "val" : "p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q." }, - "comments" : [ "holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y" ], "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "pred" : "http://purl.org/dc/terms/creator", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Causally_upstream_of,_positive_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002305", - "lbl" : "causally upstream of, negative effect", + "id" : "http://purl.obolibrary.org/obo/RO_0002412", + "lbl" : "immediately causally upstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q." + "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002411" - }, { - "pred" : "http://purl.org/dc/terms/creator", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Causally_upstream_of,_negative_effect" + "pred" : "http://purl.obolibrary.org/obo/RO_0002575", + "val" : "http://purl.obolibrary.org/obo/RO_0002411" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002314", - "lbl" : "characteristic of part of", + "id" : "http://purl.obolibrary.org/obo/RO_0002418", + "lbl" : "causally upstream of or within", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w." + "val" : "p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q." }, + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "affects" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of" + "val" : "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "inheres in part of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://www.ncbi.nlm.nih.gov/pubmed/20064205" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/reflexivity/" + "val" : "influences (processual)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002323", - "lbl" : "mereotopologically related to", + "id" : "http://purl.obolibrary.org/obo/RO_0002427", + "lbl" : "causally downstream of or within", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A mereological relationship or a topological relationship" + "val" : "inverse of causally upstream of or within" }, + "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002327", - "lbl" : "enables", + "id" : "http://purl.obolibrary.org/obo/RO_0002428", + "lbl" : "involved in regulation of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c enables p iff c is capable of p and c acts to execute p." + "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "a particular instances of akt-2 enables some instance of protein kinase activity" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "catalyzes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "executes" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "has" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is catalyzing" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is executing" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This relation differs from the parent relation 'capable of' in that the parent is weaker and only expresses a capability that may not be actually realized, whereas this relation is always realized." - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enables" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002328", - "lbl" : "functionally related to", + "id" : "http://purl.obolibrary.org/obo/RO_0002429", + "lbl" : "involved in positive regulation of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities." + "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This is a grouping relation that collects relations used for the purpose of connecting structure and function" + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002428" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002329", - "lbl" : "part of structure that is capable of", + "id" : "http://purl.obolibrary.org/obo/RO_0002430", + "lbl" : "involved in negative regulation of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "this relation holds between c and p when c is part of some c', and c' is capable of p." + "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "false" + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002428" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002331", - "lbl" : "involved in", + "id" : "http://purl.obolibrary.org/obo/RO_0002431", + "lbl" : "involved in or involved in regulation of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved_in p if and only if c enables some process p', and p' is part of p" + "val" : "c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p" }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "OWL does not allow defining object properties via a Union" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "actively involved in" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "enables part of" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Involved_in" + "val" : "involved in or reguates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002333", - "lbl" : "enabled by", + "id" : "http://purl.obolibrary.org/obo/RO_0002432", + "lbl" : "is active in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of enables" + "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", + "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], + "comments" : [ "" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "enables activity in" + } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A protein that enables activity in a cytosol." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "executes activity in" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Enabled_by" + "val" : "https://wiki.geneontology.org/Is_active_in" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002334", - "lbl" : "regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002434", + "lbl" : "interacts with", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of regulates" + "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "in pairwise interaction with" + } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Considering relabeling as 'pairwise interacts with'" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "regulated by (processual)" - } ] + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" + }, { + "pred" : "http://www.w3.org/2004/02/skos/core#closeMatch", + "val" : "http://purl.obolibrary.org/obo/MI_0914" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002335", - "lbl" : "negatively regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002436", + "lbl" : "molecularly interacts with", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of negatively regulates" + "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "binds" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "molecularly binds with" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ECO_0000353" + }, { + "pred" : "http://www.w3.org/2004/02/skos/core#closeMatch", + "val" : "http://purl.obolibrary.org/obo/MI_0915" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002336", - "lbl" : "positively regulated by", + "id" : "http://purl.obolibrary.org/obo/RO_0002447", + "lbl" : "phosphorylates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "inverse of positively regulates" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Axiomatization to GO to be added later" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002350", - "lbl" : "member of", + "id" : "http://purl.obolibrary.org/obo/RO_0002448", + "lbl" : "directly regulates activity of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "is member of is a mereological relation between a item and a collection." + "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "molecularly controls" + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "An organism that is a member of a population of organisms" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "is member of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "member part of" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "SIO" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002351", - "lbl" : "has member", + "id" : "http://purl.obolibrary.org/obo/RO_0002449", + "lbl" : "directly negatively regulates activity of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "has member is a mereological relation between a collection and an item." + "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "molecularly decreases activity of" + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "SIO" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0001900", - "val" : "http://purl.obolibrary.org/obo/RO_0001901" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "directly inhibits" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002352", - "lbl" : "input of", + "id" : "http://purl.obolibrary.org/obo/RO_0002450", + "lbl" : "directly positively regulates activity of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of has input" + "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "molecularly increases activity of" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "directly activates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002353", - "lbl" : "output of", + "id" : "http://purl.obolibrary.org/obo/RO_0002464", + "lbl" : "helper property (not for use in curation)", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "inverse of has output" - }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259", "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002404", - "lbl" : "causally downstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002479", + "lbl" : "has part that occurs in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of upstream of" + "val" : "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000428" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002405", - "lbl" : "immediately causally downstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002481", + "lbl" : "is kinase activity", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000428" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002407", - "lbl" : "indirectly positively regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002500", + "lbl" : "causal agent in process", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." + "val" : "A relationship between a material entity and a process where the material entity has some causal role that influences the process" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "indirectly activates" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0002579", - "val" : "http://purl.obolibrary.org/obo/RO_0002213" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_positively_regulates" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002409", - "lbl" : "indirectly negatively regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0002501", + "lbl" : "causal relation between processes", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." + "val" : "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "indirectly inhibits" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0002579", - "val" : "http://purl.obolibrary.org/obo/RO_0002212" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002502", + "lbl" : "depends on", + "type" : "PROPERTY", + "propertyType" : "OBJECT", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Indirectly_negatively_regulates" + "val" : "http://purl.obolibrary.org/obo/BFO_0000169" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002410", - "lbl" : "causally related to", + "id" : "http://purl.obolibrary.org/obo/RO_0002506", + "lbl" : "causal relation between entities", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause.", - "xrefs" : [ "https://en.wikipedia.org/wiki/Causality" ] - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative?\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." + "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002411", - "lbl" : "causally upstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002559", + "lbl" : "causally influenced by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "causally influenced by (entity-centric)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002412", - "lbl" : "immediately causally upstream of", + "id" : "http://purl.obolibrary.org/obo/RO_0002563", + "lbl" : "interaction relation helper property", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." - }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0002575", - "val" : "http://purl.obolibrary.org/obo/RO_0002411" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002418", - "lbl" : "causally upstream of or within", + "id" : "http://purl.obolibrary.org/obo/RO_0002564", + "lbl" : "molecular interaction relation helper property", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q." - }, - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "affects" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" - }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "influences (processual)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002427", - "lbl" : "causally downstream of or within", + "id" : "http://purl.obolibrary.org/obo/RO_0002566", + "lbl" : "causally influences", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "inverse of causally upstream of or within" + "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." }, - "subsets" : [ "http://purl.obolibrary.org/obo/RO_0002259" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "causally influences (entity-centric)" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002428", - "lbl" : "involved in regulation of", + "id" : "http://purl.obolibrary.org/obo/RO_0002578", + "lbl" : "directly regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' regulates some p" + "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "directly regulates (processual)" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002575", + "val" : "http://purl.obolibrary.org/obo/RO_0002211" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002429", - "lbl" : "involved in positive regulation of", + "id" : "http://purl.obolibrary.org/obo/RO_0002584", + "lbl" : "has part structure that is capable of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" + "val" : "s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p" }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002430", - "lbl" : "involved in negative regulation of", + "id" : "http://purl.obolibrary.org/obo/RO_0002595", + "lbl" : "causal relation between material entity and a process", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" + "val" : "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002428" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002431", - "lbl" : "involved in or involved in regulation of", + "id" : "http://purl.obolibrary.org/obo/RO_0002596", + "lbl" : "capable of regulating", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p" + "val" : "Holds between c and p if and only if c is capable of some activity a, and a regulates p." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "OWL does not allow defining object properties via a Union" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "pyrethroid -> growth" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "involved in or reguates" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002432", - "lbl" : "is active in", + "id" : "http://purl.obolibrary.org/obo/RO_0002597", + "lbl" : "capable of negatively regulating", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure.", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165", "https://orcid.org/0000-0002-7073-9172" ] + "val" : "Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p." }, - "comments" : [ "" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "enables activity in" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A protein that enables activity in a cytosol." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "executes activity in" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Is_active_in" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002434", - "lbl" : "interacts with", + "id" : "http://purl.obolibrary.org/obo/RO_0002598", + "lbl" : "capable of positively regulating", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." + "val" : "Holds between c and p if and only if c is capable of some activity a, and a positively regulates p." }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "in pairwise interaction with" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Considering relabeling as 'pairwise interacts with'" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "renin -> arteriolar smooth muscle contraction" }, { - "pred" : "http://www.w3.org/2004/02/skos/core#closeMatch", - "val" : "http://purl.obolibrary.org/obo/MI_0914" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002436", - "lbl" : "molecularly interacts with", + "id" : "http://purl.obolibrary.org/obo/RO_0002608", + "lbl" : "process has causal agent", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." + "val" : "Inverse of 'causal agent in process'" }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "binds" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "molecularly binds with" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ECO_0000353" - }, { - "pred" : "http://www.w3.org/2004/02/skos/core#closeMatch", - "val" : "http://purl.obolibrary.org/obo/MI_0915" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002447", - "lbl" : "phosphorylates", + "id" : "http://purl.obolibrary.org/obo/RO_0002629", + "lbl" : "directly positively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { + "definition" : { + "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Axiomatization to GO to be added later" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "directly positively regulates (process to process)" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002578" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Directly_positively_regulates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002448", - "lbl" : "directly regulates activity of", + "id" : "http://purl.obolibrary.org/obo/RO_0002630", + "lbl" : "directly negatively regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." + "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly controls" - } ], + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-4639-4431" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", + "val" : "directly negatively regulates (process to process)" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002578" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002449", - "lbl" : "directly negatively regulates activity of", + "id" : "http://purl.obolibrary.org/obo/RO_0003000", + "lbl" : "produces", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." + "val" : "a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix." }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly decreases activity of" - } ], + "comments" : [ "Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue." ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-4639-4431" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "directly inhibits" + "val" : "https://orcid.org/0000-0001-9114-8737" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002450", - "lbl" : "directly positively regulates activity of", + "id" : "http://purl.obolibrary.org/obo/RO_0003001", + "lbl" : "produced by", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." + "val" : "a produced_by b iff some process that occurs_in b has_output a." }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecularly increases activity of" - } ], + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-4639-4431" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", - "val" : "directly activates" + "val" : "https://orcid.org/0000-0001-9114-8737" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002464", - "lbl" : "helper property (not for use in curation)", + "id" : "http://purl.obolibrary.org/obo/RO_0004028", + "lbl" : "realized in response to stimulus", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { + "definition" : { + "val" : "A relationship between a realizable entity R (e.g. function or disposition) and a material entity M where R is realized in response to a process that has an input stimulus of M." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-12-26T19:45:49Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002479", - "lbl" : "has part that occurs in", + "id" : "http://purl.obolibrary.org/obo/RO_0004031", + "lbl" : "enables subfunction", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." + "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-25T23:20:13Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002481", - "lbl" : "is kinase activity", + "id" : "http://purl.obolibrary.org/obo/RO_0004032", + "lbl" : "acts upstream of or within, positive effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002264" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" - } ] + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-26T23:49:30Z" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002500", - "lbl" : "causal agent in process", + "id" : "http://purl.obolibrary.org/obo/RO_0004033", + "lbl" : "acts upstream of or within, negative effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "definition" : { - "val" : "A relationship between a material entity and a process where the material entity has some causal role that influences the process" - }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002264" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-26T23:49:51Z" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002501", - "lbl" : "causal relation between processes", + "id" : "http://purl.obolibrary.org/obo/RO_0004034", + "lbl" : "acts upstream of, positive effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." + "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002263" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-26T23:53:14Z" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002502", - "lbl" : "depends on", + "id" : "http://purl.obolibrary.org/obo/RO_0004035", + "lbl" : "acts upstream of, negative effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { + "definition" : { + "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" + }, + "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002263" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-01-26T23:53:22Z" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/BFO_0000169" + "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002506", - "lbl" : "causal relation between entities", + "id" : "http://purl.obolibrary.org/obo/RO_0004046", + "lbl" : "causally upstream of or within, negative effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" + "pred" : "http://purl.obolibrary.org/obo/RO_0004050", + "val" : "http://purl.obolibrary.org/obo/RO_0002418" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-03-13T23:55:05Z" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Causally_upstream_of_or_within,_negative_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002559", - "lbl" : "causally influenced by", + "id" : "http://purl.obolibrary.org/obo/RO_0004047", + "lbl" : "causally upstream of or within, positive effect", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/RO_0004049", + "val" : "http://purl.obolibrary.org/obo/RO_0002418" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-03-13T23:55:19Z" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "causally influenced by (entity-centric)" + "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", + "val" : "https://wiki.geneontology.org/Causally_upstream_of_or_within,_positive_effect" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002563", - "lbl" : "interaction relation helper property", + "id" : "http://purl.obolibrary.org/obo/RO_0004096", + "lbl" : "DEPRECATED inheres in", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" - } ] + "comments" : [ "DEPRECATED This relation is similar to but different in important respects to the characteristic-of relation. See comments on that relation for more information." ], + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002564", - "lbl" : "molecular interaction relation helper property", + "id" : "http://purl.obolibrary.org/obo/RO_0004097", + "lbl" : "DEPRECATED bearer of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" - } ] + "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002566", - "lbl" : "causally influences", + "id" : "http://purl.obolibrary.org/obo/RO_0009501", + "lbl" : "realized in response to", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." + "val" : "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r." }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "triggered by process", + "xrefs" : [ "https://orcid.org/0000-0002-6601-2165" ] + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "An inflammatory disease that is realized in response to an inflammatory process occurring in the gut (which is itself the realization of a process realized in response to harmful stimuli in the mucosal lining of th gut)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph." + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-6996-0040" + }, { + "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0002-6601-2165" }, { - 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"val" : "http://www.jbiomedsem.com/content/4/1/43" + "val" : "[072-ISO]" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002578", - "lbl" : "directly regulates", + "id" : "http://purl.obolibrary.org/obo/RO_0010002", + "lbl" : "is carrier of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "p directly regulates q iff p is immediately causally upstream of q and p regulates q." + "val" : "*b* is carrier of *c* at time *t* if and only if *c* *g-depends on* *b* at *t*" }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Molecules of DNA are carriers of genetic information." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "This copy of *War and Peace* is carrier of the novel written by Tolstoy." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "directly regulates (processual)" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "This hard drive is carrier of these data items." }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0002575", - "val" : "http://purl.obolibrary.org/obo/RO_0002211" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "[072-ISO]" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002581", - "lbl" : "is a defining property chain axiom", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "If R <- P o Q is a defining property chain axiom, then it also holds that R -> P o Q. Note that this cannot be expressed directly in OWL" - } - } - }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002582", - "lbl" : "is a defining property chain axiom where second argument is reflexive", + "id" : "http://purl.obolibrary.org/obo/RO_0011002", + "lbl" : "regulates activity of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "If R <- P o Q is a defining property chain axiom, then (1) R -> P o Q holds and (2) Q is either reflexive or locally reflexive. A corollary of this is that P SubPropertyOf R." - } + "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0003-4639-4431" + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002584", - "lbl" : "has part structure that is capable of", + "id" : "http://purl.obolibrary.org/obo/RO_0012011", + "lbl" : "indirectly causally upstream of", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p" + "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0003-1813-6857" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2022-09-26T06:07:17Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002595", - "lbl" : "causal relation between material entity and a process", + "id" : "http://purl.obolibrary.org/obo/RO_0012012", + "lbl" : "indirectly regulates", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." + "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "https://orcid.org/0000-0003-1813-6857" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2022-09-26T06:08:01Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002596", - "lbl" : "capable of regulating", + "id" : "http://purl.obolibrary.org/obo/RO_0017001", + "lbl" : "device utilizes material", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Holds between c and p if and only if c is capable of some activity a, and a regulates p." + "val" : "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." }, + "synonyms" : [ { + "pred" : "hasBroadSynonym", + "val" : "utilizes" + } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "pyrethroid -> growth" + "val" : "A diagnostic testing device utilizes a specimen." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "See github ticket https://github.com/oborel/obo-relations/issues/497" + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-9625-1899" + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0003-2620-0345" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2021-11-08T12:00:00Z" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002597", - "lbl" : "capable of negatively regulating", + "id" : "http://purl.obolibrary.org/obo/RO_0019000", + "lbl" : "regulates characteristic", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p." + "val" : "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-8688-6599" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002598", - "lbl" : "capable of positively regulating", + "id" : "http://purl.obolibrary.org/obo/RO_0019001", + "lbl" : "positively regulates characteristic", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Holds between c and p if and only if c is capable of some activity a, and a positively regulates p." + "val" : "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "renin -> arteriolar smooth muscle contraction" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-8688-6599" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002608", - "lbl" : "process has causal agent", + "id" : "http://purl.obolibrary.org/obo/RO_0019002", + "lbl" : "negatively regulates characteristic", "type" : "PROPERTY", + "propertyType" : "OBJECT", "meta" : { "definition" : { - "val" : "Inverse of 'causal agent in process'" + "val" : "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-8688-6599" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002629", - "lbl" : "directly positively regulates", + "id" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty", + "type" : "PROPERTY", + "propertyType" : "OBJECT" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000004", + "lbl" : "has measurement value", + "type" : "PROPERTY", + "propertyType" : "DATA" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000404", + "lbl" : "has x coordinate value", + "type" : "PROPERTY", + "propertyType" : "DATA" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000405", + "lbl" : "has z coordinate value", + "type" : "PROPERTY", + "propertyType" : "DATA" + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000406", + "lbl" : "has y coordinate value", + "type" : "PROPERTY", + "propertyType" : "DATA" + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000136", + "lbl" : "date", "type" : "PROPERTY", + "propertyType" : "DATA", "meta" : { - "definition" : { - "val" : "p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "directly positively regulates (process to process)" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_positively_regulates" - } ] + "comments" : [ "The only valid string values for this property are ISO 8601 formatted date strings in extended form. It is allowable specify only the year, e.g. '2016' but only when the 1D temporal region references the entire year. Ditto for month, e.g. 2016-04 is acceptable but only if it references the entire interval of that month." ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0002630", - "lbl" : "directly negatively regulates", + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000137", + "lbl" : "time of day", "type" : "PROPERTY", + "propertyType" : "DATA", "meta" : { - "definition" : { - "val" : "p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q." - }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", "http://purl.obolibrary.org/obo/valid_for_go_ontology", "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", - "val" : "directly negatively regulates (process to process)" - }, { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002578" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Directly_negatively_regulates" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "time" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0003000", - "lbl" : "produces", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000002", + "lbl" : "example to be eventually removed", + "type" : "INDIVIDUAL", "meta" : { - "definition" : { - "val" : "a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix." - }, - "comments" : [ "Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue." ], - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0001-9114-8737" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "example to be eventually removed" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0003001", - "lbl" : "produced by", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000103", + "lbl" : "failed exploratory term", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "a produced_by b iff some process that occurs_in b has_output a." + "val" : "The term was used in an attempt to structure part of the ontology but in retrospect failed to do a good job" }, - "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", - "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "failed exploratory term" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0001-9114-8737" + "val" : "Person:Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004028", - "lbl" : "realized in response to stimulus", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000120", + "lbl" : "metadata complete", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "A relationship between a realizable entity R (e.g. function or disposition) and a material entity M where R is realized in response to a process that has an input stimulus of M." + "val" : "Class has all its metadata, but is either not guaranteed to be in its final location in the asserted IS_A hierarchy or refers to another class that is not complete." }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-12-26T19:45:49Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "metadata complete" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004031", - "lbl" : "enables subfunction", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000121", + "lbl" : "organizational term", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." + "val" : "Term created to ease viewing/sort terms for development purpose, and will not be included in a release" }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-25T23:20:13Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "organizational term" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004032", - "lbl" : "acts upstream of or within, positive effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000122", + "lbl" : "ready for release", + "type" : "INDIVIDUAL", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], + "definition" : { + "val" : "Class has undergone final review, is ready for use, and will be included in the next release. Any class lacking \"ready_for_release\" should be considered likely to change place in hierarchy, have its definition refined, or be obsoleted in the next release. Those classes deemed \"ready_for_release\" will also derived from a chain of ancestor classes that are also \"ready_for_release.\"" + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:30Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ready for release" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_positive_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004033", - "lbl" : "acts upstream of or within, negative effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000123", + "lbl" : "metadata incomplete", + "type" : "INDIVIDUAL", "meta" : { - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], + "definition" : { + "val" : "Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002264" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:49:51Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of_or_within,_negative_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "metadata incomplete" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004034", - "lbl" : "acts upstream of, positive effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000124", + "lbl" : "uncurated", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" + "val" : "Nothing done yet beyond assigning a unique class ID and proposing a preferred term." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:14Z" - }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_positive_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "uncurated" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004035", - "lbl" : "acts upstream of, negative effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000125", + "lbl" : "pending final vetting", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" + "val" : "All definitions, placement in the asserted IS_A hierarchy and required minimal metadata are complete. The class is awaiting a final review by someone other than the term editor." }, - "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_go_gp2term" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002263" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-01-26T23:53:22Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "pending final vetting" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Acts_upstream_of,_negative_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004046", - "lbl" : "causally upstream of or within, negative effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000224", + "lbl" : "obsolete_core", + "type" : "INDIVIDUAL", "meta" : { + "definition" : { + "val" : "Core is an instance of a grouping of terms from an ontology or ontologies. It is used by the ontology to identify main classes." + }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004050", - "val" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Alan Ruttenberg" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-03-13T23:55:05Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON: Melanie Courtot" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Causally_upstream_of_or_within,_negative_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000231", + "val" : "http://purl.obolibrary.org/obo/IAO_0000226" + } ], + "deprecated" : true + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000226", + "lbl" : "placeholder removed", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "placeholder removed" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004047", - "lbl" : "causally upstream of or within, positive effect", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000227", + "lbl" : "terms merged", + "type" : "INDIVIDUAL", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0004049", - "val" : "http://purl.obolibrary.org/obo/RO_0002418" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "terms merged" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-03-13T23:55:19Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "An editor note should explain what were the merged terms and the reason for the merge." + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000228", + "lbl" : "term imported", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term imported" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://wiki.geneontology.org/Causally_upstream_of_or_within,_positive_effect" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is to be used when the original term has been replaced by a term imported from an other ontology. An editor note should indicate what is the URI of the new term to use." } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004096", - "lbl" : "DEPRECATED inheres in", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000229", + "lbl" : "term split", + "type" : "INDIVIDUAL", "meta" : { - "comments" : [ "DEPRECATED This relation is similar to but different in important respects to the characteristic-of relation. See comments on that relation for more information." ], - "deprecated" : true + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term split" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is to be used when a term has been split in two or more new terms. An editor note should indicate the reason for the split and indicate the URIs of the new terms created." + } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0004097", - "lbl" : "DEPRECATED bearer of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000230", + "lbl" : "obsolete_other", + "type" : "INDIVIDUAL", "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is to be used if none of the existing instances cover the reason for obsolescence. An editor note should indicate this new reason." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "We expect to be able to mine these new reasons and add instances as required." + } ], "deprecated" : true } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0009501", - "lbl" : "realized in response to", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000410", + "lbl" : "universal", + "type" : "INDIVIDUAL", "meta" : { - "definition" : { - "val" : "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r." - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "triggered by process", - "xrefs" : [ "https://orcid.org/0000-0002-6601-2165" ] - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "An inflammatory disease that is realized in response to an inflammatory process occurring in the gut (which is itself the realization of a process realized in response to harmful stimuli in the mucosal lining of th gut)" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph." - }, { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0001-6996-0040" - }, { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-6601-2165" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "universal" }, { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-7073-9172" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "Hard to give a definition for. Intuitively a \"natural kind\" rather than a collection of any old things, which a class is able to be, formally. At the meta level, universals are defined as positives, are disjoint with their siblings, have single asserted parents." }, { - "pred" : "http://purl.org/dc/terms/contributor", - "val" : "https://orcid.org/0000-0002-8461-9745" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" }, { - "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", - "val" : "https://docs.google.com/document/d/1KWhZxVBhIPkV6_daHta0h6UyHbjY2eIrnON1WIRGgdY/edit" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "A Formal Theory of Substances, Qualities, and Universals, http://ontology.buffalo.edu/bfo/SQU.pdf" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0010001", - "lbl" : "generically depends on", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000420", + "lbl" : "defined class", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "A generically dependent continuant *b* generically depends on an independent continuant *c* at time *t* means: there inheres in *c* a specifically deendent continuant which concretizes *b* at *t*." + "val" : "A defined class is a class that is defined by a set of logically necessary and sufficient conditions but is not a universal" }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "g-depends on" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Genetic information generically depend on molecules of DNA." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The novel *War and Peace* generically depends on this copy of the novel." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The pattern shared by chess boards generically depends on any chess board." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "The score of a symphony g-depends on a copy of the score." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "defined class" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This pdf file generically depends on this server." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "\"definitions\", in some readings, always are given by necessary and sufficient conditions. So one must be careful (and this is difficult sometimes) to distinguish between defined classes and universal." }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "[072-ISO]" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0010002", - "lbl" : "is carrier of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000421", + "lbl" : "named class expression", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "*b* is carrier of *c* at time *t* if and only if *c* *g-depends on* *b* at *t*" + "val" : "A named class expression is a logical expression that is given a name. The name can be used in place of the expression." }, "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "Molecules of DNA are carriers of genetic information." - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This copy of *War and Peace* is carrier of the novel written by Tolstoy." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "named class expression" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "This hard drive is carrier of these data items." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "named class expressions are used in order to have more concise logical definition but their extensions may not be interesting classes on their own. In languages such as OWL, with no provisions for macros, these show up as actuall classes. Tools may with to not show them as such, and to replace uses of the macros with their expansions" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", - "val" : "[072-ISO]" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0011002", - "lbl" : "regulates activity of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000423", + "lbl" : "to be replaced with external ontology term", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." + "val" : "Terms with this status should eventually replaced with a term from another ontology." }, "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "to be replaced with external ontology term" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-4639-4431" + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "group:OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012011", - "lbl" : "indirectly causally upstream of", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/IAO_0000428", + "lbl" : "requires discussion", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q." + "val" : "A term that is metadata complete, has been reviewed, and problems have been identified that require discussion before release. Such a term requires editor note(s) to identify the outstanding issues." }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "requires discussion" }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:07:17Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "group:OBI" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0012012", - "lbl" : "indirectly regulates", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMO_0001000", + "lbl" : "out of scope", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q." + "val" : "The term was added to the ontology on the assumption it was in scope, but it turned out later that it was not." }, "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "https://orcid.org/0000-0003-1813-6857" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This obsolesence reason should be used conservatively. Typical valid examples are: un-necessary grouping classes in disease ontologies, a phenotype term added on the assumption it was a disease." }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2022-09-26T06:08:01Z" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "http://orcid.org/0000-0001-5208-3432" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/77" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "https://orcid.org/0000-0001-5208-3432" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/RO_0017001", - "lbl" : "device utilizes material", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/OMO_0001002", + "lbl" : "domain entity does not exist", + "type" : "INDIVIDUAL", "meta" : { "definition" : { - "val" : "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." + "val" : "The term was added to the ontology on the assumption it was a valid domain entity, but it turns out the entity does not exist in reality." }, - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "utilizes" - } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", - "val" : "A diagnostic testing device utilizes a specimen." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This obsolesence reason should be used conservatively. For example: Obsoleting class that describes a breed of cow based on a record in an existing database, that was later retracted as faulty (breed does not exist). Do not use this term to obsolete a historic concept (that was once valid, but not anymore). " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0001-9625-1899" + "val" : "http://orcid.org/0000-0002-4142-7153" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "https://orcid.org/0000-0003-2620-0345" + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/136" }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", - "val" : "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "https://orcid.org/0000-0002-4142-7153" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000508", + "lbl" : "Abkhazian", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Аҧсуа 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"http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Chuang" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Vahcuengh" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "話僮" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002025", + "val" : "za" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "zha" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "zha" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000920", + "lbl" : "Zulu", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "isiZulu" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002025", + "val" : "zu" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "zul" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "zul" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000921", + "lbl" : "Zuni", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Shiwi'ma" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "zun" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "zun" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMRSE_00000922", + "lbl" : "Zaza", + "type" : "INDIVIDUAL", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Dimili" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Dimli" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Kirdki" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Kirmanjki" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", + "val" : "Zazaki" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002026", + "val" : "zza" + }, { + "pred" : "http://purl.obolibrary.org/obo/OMRSE_00002027", + "val" : "zza" + } ] + } + }, { + "id" : "http://protege.stanford.edu/plugins/owl/protege#defaultLanguage", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000179", + "lbl" : "BFO OWL specification label", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Really of interest to developers only" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/BFO_0000180", + "lbl" : "BFO CLIF specification label", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "Really of interest to developers only" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000111", + "lbl" : "editor preferred term", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "editor preferred term" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000112", + "lbl" : "example of usage", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "example of usage" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000113", + "lbl" : "in branch", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An annotation property indicating which module the terms belong to. This is currently experimental and not implemented yet." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "in branch" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "GROUP:OBI" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "OBI_0000277" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000114", + "lbl" : "has curation status", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has curation status" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Bill Bug" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000115", + "lbl" : "textual definition", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "definition" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2012-04-05: \nBarry Smith\n\nThe official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.\n\nCan you fix to something like:\n\nA statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.\n\nAlan Ruttenberg\n\nYour proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. \n\nOn the specifics of the proposed definition:\n\nWe don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. \n\nPersonally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. \n\nWe also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "2012-04-05: \nBarry Smith\n\nThe official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.\n\nCan you fix to something like:\n\nA statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.\n\nAlan Ruttenberg\n\nYour proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. \n\nOn the specifics of the proposed definition:\n\nWe don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. \n\nPersonally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. \n\nWe also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with. " + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000116", + "lbl" : "editor note", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "editor note" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000117", + "lbl" : "term editor", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term editor" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000118", + "lbl" : "alternative term", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A label for a class or property that can be used to refer to the class or property instead of the preferred rdfs:label. Alternative labels should be used to indicate community- or context-specific labels, abbreviations, shorthand forms and the like." + }, + "comments" : [ "Consider re-defing to: An alternative name for a class or property which can mean the same thing as the preferred name (semantically equivalent, narrow, broad or related)." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "alternative label" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "OBO Operations committee" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000119", + "lbl" : "definition source", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "definition source" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Daniel Schober" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000231", + "lbl" : "has obsolescence reason", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an annotation property to an obsolescence reason. The values of obsolescence reasons come from a list of predefined terms, instances of the class obsolescence reason specification." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has obsolescence reason" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000232", + "lbl" : "curator note", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An administrative note of use for a curator but of no use for a user" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "curator note" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000122" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000233", + "lbl" : "term tracker item", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An IRI or similar locator for a request or discussion of an ontology term." + }, + "comments" : [ "The 'tracker item' can associate a tracker with a specific ontology term." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term tracker item" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "the URI for an OBI Terms ticket at sourceforge, such as https://sourceforge.net/p/obi/obi-terms/772/" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000234", + "lbl" : "ontology term requester", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "The name of the person, project, or organization that motivated inclusion of an ontology term by requesting its addition." + }, + "comments" : [ "The 'term requester' can credit the person, organization or project who request the ontology term." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "ontology term requester" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000411", + "lbl" : "is denotator type", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an class defined in an ontology, to the type of it's denotator" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is denotator type" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "In OWL 2 add AnnotationPropertyRange('is denotator type' 'denotator type')" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000412", + "lbl" : "imported from", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "For external terms/classes, the ontology from which the term was imported" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "imported from" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBI:" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000424", + "lbl" : "expand expression to", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A macro expansion tag applied to an object property (or possibly a data property) which can be used by a macro-expansion engine to generate more complex expressions from simpler ones" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "expand expression to" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "ObjectProperty: RO_0002104\nLabel: has plasma membrane part\nAnnotations: IAO_0000424 \"http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.org/obo/owl/GO#GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"\n" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000425", + "lbl" : "expand assertion to", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A macro expansion tag applied to an annotation property which can be expanded into a more detailed axiom." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "expand assertion to" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "ObjectProperty: RO???\nLabel: spatially disjoint from\nAnnotations: expand_assertion_to \"DisjointClasses: (http://purl.obolibrary.org/obo/BFO_0000051 some ?X) (http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)\"\n" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000426", + "lbl" : "first order logic expression", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "first order logic expression" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000427", + "lbl" : "antisymmetric property", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Use boolean value xsd:true to indicate that the property is an antisymmetric property" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "antisymmetric property" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "part_of antisymmetric property xsd:true" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000589", + "lbl" : "OBO foundry unique label", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "An alternative name for a class or property which is unique across the OBO Foundry." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "OBO foundry unique label" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools ." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Bjoern Peters" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Chris Mungall" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Melanie Courtot" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "GROUP:OBO Foundry " + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000596", + "lbl" : "has ID digit count", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an ontology used to record id policy to the number of digits in the URI. The URI is: the 'has ID prefix\" annotation property value concatenated with an integer in the id range (left padded with \"0\"s to make this many digits)" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ID digit count" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000597", + "lbl" : "has ID range allocated to", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates a datatype that encodes a range of integers to the name of the person or organization who can use those ids constructed in that range to define new terms" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ID range allocated" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Datatype: idrange:1\nAnnotations: 'has ID range allocated to': \"Chris Mungall\"\nEquivalentTo: xsd:integer[> 2151 , <= 2300]\n" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000598", + "lbl" : "has ID policy for", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relating an ontology used to record id policy to the ontology namespace whose policy it manages" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ID policy for" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000599", + "lbl" : "has ID prefix", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an ontology used to record id policy to a prefix concatenated with an integer in the id range (left padded with \"0\"s to make this many digits) to construct an ID for a term being created." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ID prefix" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "Ontology: \n Annotations: \n 'has ID prefix': \"http://purl.obolibrary.org/obo/RO_\"\n 'has ID digit count' : 7,\n rdfs:label \"RO id policy\"\n 'has ID policy for': \"RO\"" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000600", + "lbl" : "elucidation", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "elucidation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Barry Smith" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000601", + "lbl" : "has associated axiom(nl)", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has associated axiom(nl)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An axiom associated with a term expressed using natural language" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000602", + "lbl" : "has associated axiom(fol)", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has associated axiom(fol)" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "An axiom expressed in first order logic using CLIF syntax" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000603", + "lbl" : "is allocated id range", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Relates an ontology IRI to an (inclusive) range of IRIs in an OBO name space. The range is give as, e.g. \"IAO_0020000-IAO_0020999\"" + }, + "comments" : [ "Add as annotation triples in the granting ontology" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "is allocated id range" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "PERSON:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000604", + "lbl" : "retired from use as of", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "relates a class of CRID to the date after which further instances should not be made, according to the central authority" + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "retired from use as of" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "In OWL 2 add AnnotationPropertyRange xsd:dateTimeStamp" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0000700", + "lbl" : "has ontology root term", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Ontology annotation property. Relates an ontology to a term that is a designated root term of the ontology. Display tools like OLS can use terms annotated with this property as the starting point for rendering the ontology class hierarchy. There can be more than one root." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has ontology root term" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Nicolas Matentzoglu" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0006011", + "lbl" : "may be identical to", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "A annotation relationship between two terms in an ontology that may refer to the same (natural) type but where more evidence is required before terms are merged." + }, + "comments" : [ "Edges asserting this should be annotated with to record evidence supporting the assertion and its provenance." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "may be identical to" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "David Osumi-Sutherland" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "#40" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "VFB" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0006012", + "lbl" : "scheduled for obsoletion on or after", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Used when the class or object is scheduled for obsoletion/deprecation on or after a particular date." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "scheduled for obsoletion on or after" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Chris Mungall, Jie Zheng" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/15532" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/32" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000234", + "val" : "GO ontology" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0010000", + "lbl" : "has axiom label", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "has axiom id" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000600", + "val" : "A URI that is intended to be unique label for an axiom used for tracking change to the ontology. For an axiom expressed in different languages, each expression is given the same URI" + }, { + "pred" : "http://www.w3.org/2000/01/rdf-schema#isDefinedBy", + "val" : "http://purl.obolibrary.org/obo/iao.owl" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0020019", + "lbl" : "IUI", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "comments" : [ "An annotation to be applied to individuals only. Value is a GUID/UUID for use in a referent tracking system." ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "instance unique identifier" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/IAO_0100001", + "lbl" : "term replaced by", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Use on obsolete terms, relating the term to another term that can be used as a substitute" + }, + "comments" : [ "Add as annotation triples in the granting ontology" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000111", + "val" : "term replaced by" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "Person:Alan Ruttenberg" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "Person:Alan Ruttenberg" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OAE_0004334", + "lbl" : "has_MedDRA_id", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/OMO_0001001", + "lbl" : "logical characteristic of object property", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "This is an annotation used on an object property to indicate a logical characterstic beyond what is possible in OWL." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "OBO Operations call" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "http://orcid.org/0000-0001-5208-3432" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/OMO_0002000", + "lbl" : "defined by construct", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "Links an annotation property to a SPARQL CONSTRUCT query which is meant to provide semantics for a shortcut relation." + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000112", + "val" : "'part disjoint with' 'defined by construct' \"\"\"\n PREFIX owl: \n PREFIX : P o Q. Note that this cannot be expressed directly in OWL" + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002582", + "lbl" : "is a defining property chain axiom where second argument is reflexive", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION", + "meta" : { + "definition" : { + "val" : "If R <- P o Q is a defining property chain axiom, then (1) R -> P o Q holds and (2) Q is either reflexive or locally reflexive. A corollary of this is that P SubPropertyOf R." + } + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0004049", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0004050", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0040042", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/valid_for_go_annotation_extension", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/valid_for_go_gp2term", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/valid_for_go_ontology", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : "http://purl.obolibrary.org/obo/valid_for_gocam", + "type" : "PROPERTY", + "propertyType" : "ANNOTATION" + }, { + "id" : 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"http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000103", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000902", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000103", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000903", "pred" : "type", - "obj" : "http://www.w3.org/2002/07/owl#Thing" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000120", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000904", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000121", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000905", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000122", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000906", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000123", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000907", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000124", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000908", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000125", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000909", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000226", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000910", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000226", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000911", "pred" : "type", - "obj" : "http://www.w3.org/2002/07/owl#Thing" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000227", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000912", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000228", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000913", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000229", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000914", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000410", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000915", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000409" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000420", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000916", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000409" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000421", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000917", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000409" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000423", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000918", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/IAO_0000428", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000919", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000078" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/OMO_0001000", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000920", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { - "sub" : "http://purl.obolibrary.org/obo/OMO_0001002", + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000921", "pred" : "type", - "obj" : "http://purl.obolibrary.org/obo/IAO_0000225" + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" + }, { + "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000922", + "pred" : "type", + "obj" : "http://purl.obolibrary.org/obo/OMRSE_00002069" }, { "sub" : "http://purl.obolibrary.org/obo/BFO_0000050", "pred" : "subPropertyOf", @@ -22873,6 +32748,10 @@ "sub" : "http://purl.obolibrary.org/obo/IAO_0021012", "pred" : "subPropertyOf", "obj" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty" + }, { + "sub" : "http://purl.obolibrary.org/obo/OBIB_0000732", + "pred" : "subPropertyOf", + "obj" : "http://www.w3.org/2002/07/owl#topObjectProperty" }, { "sub" : "http://purl.obolibrary.org/obo/OBI_0000293", "pred" : "subPropertyOf", @@ -23533,6 +33412,18 @@ "sub" : "http://purl.obolibrary.org/obo/IAO_0000418", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/IAO_0000419" + }, { + "sub" : "http://purl.obolibrary.org/obo/OBIB_0000732", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/OBIB_0000735" + }, { + "sub" : "http://purl.obolibrary.org/obo/OBI_0000299", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/OBI_0000312" + }, { + "sub" : "http://purl.obolibrary.org/obo/OBI_0000846", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/OBI_0001688" }, { "sub" : "http://purl.obolibrary.org/obo/OMRSE_00000263", "pred" : "inverseOf", @@ -24016,6 +33907,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/OBI_0000299", "domainClassIds" : [ "http://purl.obolibrary.org/obo/OBI_0000011" ] + }, { + "predicateId" : "http://purl.obolibrary.org/obo/OBI_0001688", + "domainClassIds" : [ "http://purl.obolibrary.org/obo/OBI_0000245" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/OMRSE_00000260", "domainClassIds" : [ "http://purl.obolibrary.org/obo/OMRSE_00000076" ], @@ -24181,6 +34075,9 @@ }, { "predicateId" : "http://purl.obolibrary.org/obo/IAO_0000039", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/IAO_0000003" ] + }, { + "predicateId" : "http://purl.obolibrary.org/obo/OBI_0000846", + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/OBI_0000245" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/OMRSE_00000070", "rangeClassIds" : [ "http://purl.obolibrary.org/obo/OMRSE_00000057" ] diff --git a/omrse.obo b/omrse.obo index 72a98f7..139d521 100644 --- a/omrse.obo +++ b/omrse.obo @@ -1,34 +1,57 @@ format-version: 1.2 -data-version: omrse/releases/2024-03-22/omrse-full.owl +data-version: omrse/releases/2024-08-09/omrse-full.owl subsetdef: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_gp2term "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_ontology "" subsetdef: http://purl.obolibrary.org/obo/valid_for_gocam "" subsetdef: ro-eco "" subsetdef: RO:0002259 "" +synonymtypedef: OMO:0003000 "abbreviation" +synonymtypedef: OMO:0003001 "ambiguous synonym" +synonymtypedef: OMO:0003002 "dubious synonym" +synonymtypedef: OMO:0003003 "layperson synonym" +synonymtypedef: OMO:0003004 "plural form" +synonymtypedef: OMO:0003005 "UK spelling synonym" +synonymtypedef: OMO:0003006 "misspelling" +synonymtypedef: OMO:0003007 "misnomer" +synonymtypedef: OMO:0003008 "previous name" +synonymtypedef: OMO:0003009 "legal name" +synonymtypedef: OMO:0003010 "International Nonproprietary Name" +synonymtypedef: OMO:0003011 "latin term" +synonymtypedef: OMO:0003012 "acronym" +idspace: dc http://purl.org/dc/elements/1.1/ +idspace: foaf http://xmlns.com/foaf/0.1/ +idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# +idspace: protege http://protege.stanford.edu/plugins/owl/protege# +idspace: skos http://www.w3.org/2004/02/skos/core# +idspace: swrl http://www.w3.org/2003/11/swrl# +idspace: swrla http://swrl.stanford.edu/ontologies/3.3/swrla.owl# +idspace: swrlb http://www.w3.org/2003/11/swrlb# +idspace: terms http://purl.org/dc/terms/ +idspace: www http://www.referent-tracking.com/ remark: This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's \"meaningful use\" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt ontology: omrse/omrse-full -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Daniel Welch" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Selja Seppälä" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Shariq Tariq" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Swetha Garimalla" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "William Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/description "The Ontology for Modeling and Representation of Social Entities (OMRSE) is an OBO Foundry ontology that represents the various entities that arise from human social interactions, such as social acts, social roles, social groups, and organizations." xsd:string -property_value: http://purl.org/dc/elements/1.1/title "Ontology for Modeling and Representation of Social Entities" xsd:string -property_value: http://purl.org/dc/terms/license "https://creativecommons.org/licenses/by/4.0/" xsd:string -property_value: owl:versionInfo "2024-03-22" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "Daniel Welch" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "Selja Seppälä" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Shariq Tariq" xsd:string +property_value: dc:creator "Swetha Garimalla" xsd:string +property_value: dc:creator "William Hogan" xsd:string +property_value: dc:description "The Ontology for Modeling and Representation of Social Entities (OMRSE) is an OBO Foundry ontology that represents the various entities that arise from human social interactions, such as social acts, social roles, social groups, and organizations." xsd:string +property_value: dc:title "Ontology for Modeling and Representation of Social Entities" xsd:string +property_value: owl:versionInfo "2024-08-09" xsd:string +property_value: terms:license "https://creativecommons.org/licenses/by/4.0/" xsd:string [Term] id: APOLLO_SV:00000008 @@ -65,7 +88,7 @@ property_value: IAO:0000600 "The planned process of finding the number of elemen [Term] id: APOLLO_SV:00000480 -name: geographical migration of organism +name: geographical movement of organism def: "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification." [] is_a: GO:0007610 ! behavior property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -96,7 +119,7 @@ property_value: IAO:0000117 "William R. Hogan" xsd:string id: APOLLO_SV:00000532 name: human travel def: "A geographical migration of an organism belonging to the species Homo sapiens." [] -is_a: APOLLO_SV:00000480 ! geographical migration of organism +is_a: APOLLO_SV:00000480 ! geographical movement of organism property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -123,7 +146,7 @@ property_value: IAO:0000112 "the Second World War" xsd:string property_value: IAO:0000112 "Verdi’s Requiem" xsd:string property_value: IAO:0000112 "your body mass index" xsd:string property_value: IAO:0000116 "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" xsd:string -property_value: IAO:0000116 "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000004", comment="per discussion with Barry Smith", seeAlso="http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf"} +property_value: IAO:0000116 "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000004", comment="per discussion with Barry Smith", seeAlso="www:_RTU/papers/CeustersICbookRevised.pdf"} property_value: IAO:0000600 "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/001-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl @@ -173,7 +196,7 @@ name: independent continuant def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/017-002"} comment: A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. is_a: BFO:0000002 ! continuant -disjoint_from: BFO:0000020 ! specifically dependent continuant +disjoint_from: BFO:0000020 ! characteristic disjoint_from: BFO:0000031 ! generically dependent continuant relationship: BFO:0000050 BFO:0000004 {all_only="true"} ! part of independent continuant property_value: BFO:0000179 "ic" xsd:string @@ -304,9 +327,10 @@ property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000017 +name: realizable name: realizable entity def: "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." [] -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 ! characteristic disjoint_from: BFO:0000019 ! quality relationship: BFO:0000050 BFO:0000017 {all_only="true"} ! part of realizable entity property_value: BFO:0000179 "realizable" xsd:string @@ -336,7 +360,7 @@ property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000019 name: quality -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 ! characteristic relationship: BFO:0000050 BFO:0000019 {all_only="true"} ! part of quality property_value: BFO:0000179 "quality" xsd:string property_value: BFO:0000180 "Quality" xsd:string @@ -354,13 +378,14 @@ property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000020 +name: characteristic name: specifically dependent continuant def: "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." [] def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"} comment: A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. is_a: BFO:0000002 ! continuant disjoint_from: BFO:0000031 ! generically dependent continuant -relationship: BFO:0000050 BFO:0000020 {all_only="true"} ! part of specifically dependent continuant +relationship: BFO:0000050 BFO:0000020 {all_only="true"} ! part of characteristic property_value: BFO:0000179 "sdc" xsd:string property_value: BFO:0000180 "SpecificallyDependentContinuant" xsd:string property_value: IAO:0000112 "of one-sided specifically dependent continuants: the mass of this tomato" xsd:string @@ -377,6 +402,8 @@ property_value: IAO:0000112 "the smell of this portion of mozzarella" xsd:string property_value: IAO:0000116 "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000005", comment="per discussion with Barry Smith"} property_value: IAO:0000602 "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " xsd:string {IAO:0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl +property_value: seeAlso "https://github.com/OBOFoundry/COB/issues/65" xsd:string +property_value: seeAlso "https://github.com/oborel/obo-relations/pull/284" xsd:string [Term] id: BFO:0000023 @@ -760,11 +787,14 @@ property_value: IAO:0000117 "Amanda Hicks" xsd:string [Term] id: GO:0003674 +name: gene product or complex activity name: molecular_function def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs." [GOC:pdt] comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex. +comment: This is the same as GO molecular function synonym: "molecular function" EXACT [] -is_a: BFO:0000034 ! function +is_a: BFO:0000015 ! process +disjoint_from: GO:0008150 ! biological_process [Term] id: GO:0007610 @@ -776,8 +806,12 @@ is_a: GO:0008150 ! biological_process [Term] id: GO:0008150 +name: biological process name: biological_process def: "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt] +def: "A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective." [] +comment: A biological process is an evolved process +comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. synonym: "biological process" EXACT [] synonym: "physiological process" EXACT [] @@ -869,7 +903,7 @@ property_value: IAO:0000119 "OBI Plan and Planned Process branch" xsd:string [Term] id: IAO:0000008 name: obsolete_artifact -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000231 IAO:0000103 is_obsolete: true @@ -902,7 +936,7 @@ property_value: IAO:0000119 "GROUP: OBI" xsd:string id: IAO:0000012 name: obsolete2_digital entity def: "A digital entity is an information entity which is a collection of bits that can be interpreted by a computer. Two digital entities are the same if they are bitwise identical." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obsolete_digital entity" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\n\nSuperclass was 'digitial quality'" xsd:string property_value: IAO:0000117 "person:Chris Stoeckert" xsd:string @@ -956,7 +990,7 @@ property_value: IAO:0000117 "Person: Alan Ruttenberg" xsd:string [Term] id: IAO:0000018 name: obsolete_material_entity -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -964,7 +998,7 @@ is_obsolete: true id: IAO:0000019 name: obsolete2_binary digital entity def: "A binary digital entity is a digital entity that is encoded in a way that is not easily human readable and that contains other than text characters." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "binary digital entity" xsd:string property_value: IAO:0000112 "MS Word document, ZIP file, DICOM file, JPEG file" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\nSuperclass was 'digital entity'" xsd:string @@ -979,7 +1013,7 @@ is_obsolete: true id: IAO:0000024 name: obsolete_unit of measure def: "a unit of measure is the quality of some material entity compared to which another quality is some multiple of." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "The length of a ruler." xsd:string property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" xsd:string @@ -1103,7 +1137,7 @@ property_value: IAO:0000117 "PlanAndPlannedProcess Branch" xsd:string id: IAO:0000035 name: obsolete_study interpretation def: "A study interpretation is a textual entity about the implications of a study result. Examples include discussion of whether a hypothesis is false, whether the study failed to address the hypothesis, and whether the study results have led to new hypotheses" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obsolete_study interpretation" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000116 "2009-03-16: definition was \"A conclusion is a narrative object which can be published in a paper summerizing and interpreting a protocol application.\"" xsd:string @@ -1148,7 +1182,7 @@ property_value: IAO:0000119 "OBI_0000240" xsd:string id: IAO:0000047 name: obsolete2_text based digital entity def: "A text based digital entity is a digital entity that is encoded so that it only contains text characters." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "text based digital entity" xsd:string property_value: IAO:0000112 "XML file, C++ source code file" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\nsuperclass was 'digital document'" xsd:string @@ -1189,7 +1223,7 @@ property_value: IAO:0000119 "OBI_0000246" xsd:string id: IAO:0000059 name: obsolete2_report figure def: "A report figure is a report display element that has some aspect of illustration, but may be a composite of figures, images, and other elements" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "report figure" xsd:string property_value: IAO:0000114 IAO:0000124 property_value: IAO:0000116 "I prepended the 'report ' to make it clear that we mean parts of reports here. We may want a more generic version of 'figure', in which case this would become a defined class - figure and part_of some report" xsd:string @@ -1276,7 +1310,7 @@ property_value: IAO:0000119 "OBI_0000099" xsd:string id: IAO:0000091 name: obsolete_report element def: "A report element is a narrative object in which information is presented and consumed by a human being, and is part of a report. Examples of report elements are figure (dot plot), table, text portion (may include a movie or audio clip on a web page)." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "report element" xsd:string property_value: IAO:0000114 IAO:0000120 property_value: IAO:0000116 "2009-03-16: needs some more work (clarify relations)." xsd:string @@ -1297,7 +1331,7 @@ is_obsolete: true id: IAO:0000093 name: obsolete2_binary executable def: "Binary executable is a digital entity consisting of the binary representation of machine instructions of a specific processor or they may be binary pseudocode for a virtual machine. A non-source executable file is also called an object program. It is assumed that the binary executable file contains properly-formatted computer instructions. (derived from Wikipedia, Nov 1, 2007)" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "binary executable" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\nsuperclass was 'digital entity'" xsd:string property_value: IAO:0000117 "person:Jennifer Fostel" xsd:string @@ -1323,7 +1357,7 @@ property_value: IAO:0000119 "OBI_0000039" xsd:string id: IAO:0000097 name: obsolete_report table def: "A report table is a report display element consisting of a matrix of cells layed out in a grid, some set of which are filled with some information content" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "report table" xsd:string property_value: IAO:0000114 IAO:0000002 property_value: IAO:0000116 "2009-08-10 Alan Ruttenberg: Larry Hunter suggests that this be obsoleted and replaced by 'textual entity table'. Alan restored as there are OBI dependencies and this merits further discussion" xsd:string @@ -1408,7 +1442,7 @@ property_value: seeAlso "https://github.com/information-artifact-ontology/IAO/is id: IAO:0000105 name: obsolete2_digital document def: "A digital document is a digital entity consisting of an electronic file which can be rendered into human-readable form by one or more computational applications. The digital document does not refer to the information content of the document but to an instance of the file." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "digital document" xsd:string property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4\nsuperclass was 'digial entity'" xsd:string property_value: IAO:0000117 "person:Jennifer Fostel" xsd:string @@ -1433,7 +1467,7 @@ property_value: IAO:0000119 "OBI_0000305" xsd:string [Term] id: IAO:0000128 name: obsolete_identifier -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000114 IAO:0000121 property_value: IAO:0000116 "_identifier is a container under information content entity for collecting types of terms to indicate a specific instance or clas of what was used or participated in an investigation. Identifiers are borne by a product or its packaging, and can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots.\n\nNote: everybody agreed that identifier is probably a too general term. We however felt that it would be appropriate to group \"identifiying\" terms under some kind of umbrella. We therefore propose to use _identifier for that purpose. As per OBI conventions, the _ prefixing identifier indicates that this is a helper class and shouldn't be considered as final." xsd:string property_value: IAO:0000231 IAO:0000226 @@ -1481,7 +1515,7 @@ property_value: IAO:0000116 "Alan grouped these in placeholder for the moment. N [Term] id: IAO:0000141 name: obsolete_digital quality -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000116 "3/22/2009 Alan Ruttenberg, obsoleted per http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4" xsd:string property_value: IAO:0000116 "Need to rework digital entity. Digital quality was suggested by Barry." xsd:string property_value: IAO:0000231 IAO:0000103 @@ -1551,7 +1585,7 @@ property_value: IAO:0000119 "WEB: http://en.wikipedia.org/wiki/Venn_diagram" xsd id: IAO:0000182 name: obsolete_survival curve def: "A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obsolete_survival curve" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON:Chris Stoeckert" xsd:string @@ -2209,7 +2243,7 @@ property_value: IAO:0000118 "associating information with a CRID in the CRID reg id: IAO:0000576 name: obsolete_establishing a CRID registry def: "a planned process with the objective to establish a system that allows to refer to specific entities of a certain kind and store information about them, by establishing a CRID registry and plan specifications for the process of 1) assigning a CRID and 2) looking up a CRID." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000116 "MC, 20101124: deprecated following discussion at IAO call 20101124. Term was deemed not necessary - no use case for now." xsd:string property_value: IAO:0000231 IAO:0000103 is_obsolete: true @@ -2925,7 +2959,7 @@ def: "A planned process which takes as input a database and fills another databa is_a: OBI:0000011 ! planned process relationship: OBI:0000293 IAO:0000030 ! has_specified_input information content entity relationship: OBI:0000299 IAO:0000030 ! has_specified_output information content entity -property_value: http://xmlns.com/foaf/0.1/page https://en.wikipedia.org/wiki/Extract,_transform,_load +property_value: foaf:page https://en.wikipedia.org/wiki/Extract,_transform,_load property_value: IAO:0000111 "database extract, transform, and load process" xsd:string property_value: IAO:0000116 "Alan Ruttenberg 12/21/16: Maybe this definition instead: A planned process which takes as input a database and copies concretizations from the first, optionally transforms then copies the result to the second" xsd:string property_value: IAO:0000116 "Alan Ruttenberg 12/21/16: We don't define database in IAO, currently, as the bare word is ambiguous. Reasonable interpretations of the word might be the material entity, an information structure, an information content entity. However this definition commits, at least, to there being some material thing which bear concretizations of information entities and that there are new concretizations created during the process. We consider the ETL process in terms of information entities rather than the concretizations. No committment is made as to whether the specified output." xsd:string @@ -3061,7 +3095,7 @@ intersection_of: OBI:0000312 IAO:0020010 {all_only="true"} ! is_specified_output intersection_of: OBI:0000312 IAO:0020010 ! is_specified_output_of identifier creating process relationship: IAO:0000219 BFO:0000001 ! denotes entity relationship: OBI:0000312 IAO:0020010 ! is_specified_output_of identifier creating process -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000111 "identifier" xsd:string property_value: IAO:0000117 "Justin Whorton" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3076,7 +3110,7 @@ def: "A grapheme is an information content entity that is a fundamental unit in def: "An information content entity that is a fundamental unit in a written language." [] comment: Grapheme is not about anything and hence is likely to not be an information content entity. If a new subclass of GDC for information structure entities is created it should move there. is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000112 "alphabetic letters, Chinese characters, numerical digits, punctuation marks, and the individual symbols of any of the world's writing systems" xsd:string property_value: IAO:0000117 "Justin Whorton" xsd:string property_value: IAO:0000119 "http://en.wikipedia.org/wiki/Grapheme" xsd:string @@ -3087,7 +3121,7 @@ id: IAO:0020002 name: utterance def: "An utterance is an information content entity that is a complete unit of speech in spoken language. " [] is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000119 "Wikipedia: http://en.wikipedia.org/wiki/Utterance" xsd:string @@ -3096,14 +3130,14 @@ id: IAO:0020003 name: mechanical wave quality def: "An attributive collection of qualities inhering in energy when transported through a medium in a wave." [] is_a: BFO:0000019 ! quality -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string [Term] id: IAO:0020004 name: writing quality def: "is a quality that is the concretization of graphemes and inheres in a material object." [] is_a: BFO:0000019 ! quality -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string [Term] @@ -3111,7 +3145,7 @@ id: IAO:0020005 name: writing bearer def: "is a material information bearer that bears the concretization of graphemes." [] is_a: IAO:0000178 ! material information bearer -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000112 "pieces of paper, tables, walls, floors, driveways, highway signs, computer screens, skin, tablets of clay, rocks, sheets of metal (license plates), sheets of papyrus, etc. clouds of smoke in skywriting," xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3126,7 +3160,7 @@ name: sound energy def: "Energy that is transported in a sound wave." [] is_a: IAO:0020006 ! portion of energy relationship: RO:0000053 IAO:0020003 ! bearer_of mechanical wave quality -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string [Term] id: IAO:0020008 @@ -3139,7 +3173,7 @@ id: IAO:0020009 name: oscillating def: "Oscillating is a processual that shows repetitive variation, typically in time, of some measured quality about a central value (often a point of equilibrium) or between two or more different states." [] is_a: BFO:0000015 ! process -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000119 "http://en.wikipedia.org/wiki/Oscillation" xsd:string [Term] @@ -3151,7 +3185,7 @@ is_a: OBI:0000011 ! planned process intersection_of: OBI:0000011 ! planned process intersection_of: OBI:0000299 IAO:0020000 ! has_specified_output identifier relationship: OBI:0000299 IAO:0020000 ! has_specified_output identifier -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Justin Whorton" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3165,7 +3199,7 @@ name: utterance process def: "is a planned process of making speech sounds which may or may not have an actual language involved. " [] is_a: OBI:0000011 ! planned process relationship: OBI:0000299 IAO:0020008 ! has_specified_output utterance energy -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000119 "http://en.wiktionary.org/wiki/utter" xsd:string @@ -3230,11 +3264,11 @@ comment: Many code sets are created for a specific purpose in addition to merely comment: The information content entities do not denote each other. is_a: IAO:0000030 ! information content entity relationship: BFO:0000051 IAO:0020000 ! has part identifier -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matt Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Clint Dowland" xsd:string +property_value: dc:contributor "Matt Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000117 "Justin Whorton" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3282,7 +3316,7 @@ property_value: IAO:0000117 "Amanda Hicks" xsd:string id: IAO:0020025 name: obsolete obligor role def: "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obligor role" xsd:string property_value: IAO:0000112 "Sam's obligor role realized by him taking Nigel to lunch after promising to do so; Sarah's obligor role realized by paying the purchase price to Layla after signing the contract specifying that she is buying a piece of land from Layla." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3294,7 +3328,7 @@ replaced_by: duty holder role (IAO:210016) id: IAO:0020026 name: obsolete obligee role def: "A role that is the specified output of an obligation generating social act and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "obligee role" xsd:string property_value: IAO:0000112 "Nigel's obligee role realized by Sam taking him out for lunch after Sam so promised; Layla's obligee role realized by receiving the money after signing a contract in which Sarah obtained a piece of land in exchange for a specified sum of money." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3315,7 +3349,7 @@ property_value: IAO:0000119 "OBIB/ICO community" xsd:string [Term] id: IAO:0021000 name: obsolete_claim -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3325,7 +3359,7 @@ name: deontic document act name: obsolete_deontic document act def: "A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document." [] is_a: IAO:0021009 ! deontic declaration -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass intersection_of: IAO:0021009 ! deontic declaration intersection_of: OBI:0000293 IAO:0021007 ! has_specified_input document act input document intersection_of: OBI:0000299 IAO:0000310 ! has_specified_output document @@ -3342,7 +3376,7 @@ is_obsolete: true id: IAO:0021002 name: obsolete_document act def: "A social act creating, revoking or transferring a socio-legal generically dependent continuant or a role by validating (signing, stamping, publishing) a document." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "my filling in an immigration form, a judge's signing and stamping a court order" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000103 @@ -3362,7 +3396,7 @@ property_value: IAO:0000117 "Mathias Brochhausen" xsd:string id: IAO:0021004 name: obsolete_socio-legal generically dependent continuant def: "Socio-legal generically dependent continuants are generically dependent continuants that come into existence through social acts and that if they get concretized are concretized as realizable entities." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "the claim of a piece of land, the obligation to pay rent to the owner of a rental property" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3371,7 +3405,7 @@ is_obsolete: true id: IAO:0021005 name: obsolete_deontic declaration def: "A social act that brings about, transfers or revokes a socio-legal generically dependent continuant or brings about or transforms a role. Declarations do not depend on words spoken or written, but sometimes are merely actions, for instance the signing of a document." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "deontic declaration" xsd:string property_value: IAO:0000112 "my consenting verbally to buy a used TV set for $ 500, John Robie's taking of Mrs. Steven's jewels, Jane Doe's revoking of informed consent over the phone, John Doe signing an employment contract." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -3384,7 +3418,7 @@ is_obsolete: true id: IAO:0021006 name: obsolete obligee role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3413,7 +3447,7 @@ property_value: IAO:0000117 "Mathias Brochhausen" xsd:string [Term] id: IAO:0021010 name: obsolete_obligation -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3432,7 +3466,7 @@ property_value: IAO:0000119 "https://plato.stanford.edu/entries/rights/" xsd:str id: IAO:0021014 name: obsolete_declaration executive role def: "The role borne by a human being, an organization or an aggregate of either of both that is realized by being the active participant in a declaration." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3442,7 +3476,7 @@ id: IAO:0021015 name: obsolete_document template creator role def: "The role of a human being or an aggregate of human beings preparing the initial document to undergo a document act, thus creating a socio-legal generically dependent continuant." [] comment: not that the "template" does not need to be a template at all. It can be a document that is getting stamped and signed and by these acts creating some socio-legal generically dependent continuants. -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "the role borne by the US Citizen and Immigration Service realized by providing the template form for entering the US as a non-resident alien, the role of a guideline committee in putting together a clinical guideline" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000226 @@ -3462,7 +3496,7 @@ property_value: IAO:0000119 "https://plato.stanford.edu/entries/rights/" xsd:str id: IAO:0021017 name: obsolete_claimant role def: "The role of a human being or an aggregate of human beings concretizing a claim." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3471,7 +3505,7 @@ is_obsolete: true id: IAO:0021018 name: obsolete_obligator role def: "The role of a human being or an aggregate of human beings concretizing an obligation." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000226 is_obsolete: true @@ -3490,7 +3524,7 @@ property_value: IAO:0000119 "https://plato.stanford.edu/entries/rights/" xsd:str id: IAO:0021020 name: obsolete_declaration target def: "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000112 "me as a bearer of a spouse role, which participates in a document act, John Doe as bearer of a debtor role, which participates in a document act" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000103 @@ -3526,7 +3560,7 @@ property_value: IAO:0000119 "https://plato.stanford.edu/entries/rights/" xsd:str id: IAO:0021030 name: obsoleted_document act target def: "The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3542,7 +3576,7 @@ property_value: IAO:0000117 "Mathias Brochhausen" xsd:string id: IAO:0021032 name: obsolete_obligee role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Sarah Bost" xsd:string property_value: IAO:0000231 IAO:0000103 is_obsolete: true @@ -3551,7 +3585,7 @@ is_obsolete: true id: IAO:0021033 name: obsolete_obligor role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Sarah Bost" xsd:string property_value: IAO:0000231 IAO:0000103 is_obsolete: true @@ -3568,7 +3602,7 @@ property_value: IAO:0000118 "enactment" xsd:string id: IAO:0021300 name: obsolete obligor role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "John Judkins" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3744,7 +3778,7 @@ property_value: IAO:0000111 "EL++ ontology module" xsd:string id: MF:0000030 name: representation def: "A dependent continuant which is about a portion of reality." [] -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 ! characteristic property_value: IAO:0000119 "http://www.jbiomedsem.com/content/1/1/10" xsd:string [Term] @@ -3950,7 +3984,7 @@ property_value: IAO:0000232 "creation date: 2011-09-20T09:57:44Z\nedited date: 3 [Term] id: OMIABIS:0000060 name: obsolete survey data -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Alice Nzinga" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3959,7 +3993,7 @@ replaced_by: OBIB:0000667 [Term] id: OMIABIS:0001025 name: obsolete survey plan specification -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Alice Nzinga" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -3968,7 +4002,7 @@ replaced_by: OBIB:0000701 [Term] id: OMIABIS:0001035 name: obsolete survey execution -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: OBIB:0000710 @@ -3977,7 +4011,7 @@ id: OMRSE:00000000 name: social security number def: "Social Security Number(SSN) is a Centrally Registered IDentifier that is a nine-digit number issued to U.S. citizens, permanent residents, and temporary (working) residents under section 205(c) of the Social Security Act, codified as 42 U.S.C. § 405(c). The number is issued to an individual by the Social Security Administration, an independent agency of the United States government. Its primary purpose is to track individuals for Social Security purposes." [] is_a: IAO:0000578 ! centrally registered identifier -property_value: http://purl.org/dc/elements/1.1/creator "Cheng Chen(cxchen1@ualr.edu)" xsd:string +property_value: dc:creator "Cheng Chen(cxchen1@ualr.edu)" xsd:string property_value: IAO:0000118 "SSN" xsd:string property_value: IAO:0000119 "http://en.wikipedia.org/wiki/Social_Security_number" xsd:string @@ -4098,8 +4132,8 @@ name: health care provider organization role def: "A role that inheres in an organization and that is realized by the providing of services in a health care encounter." [] is_a: OMRSE:00000027 ! organization health care role relationship: BFO:0000054 OGMS:0000097 ! realized in health care encounter -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000016 @@ -4117,7 +4151,7 @@ property_value: IAO:0000117 "Amanda Hicks" xsd:string id: OMRSE:00000018 name: obsolete_hospital role def: "A role borne by an organization and realized by providing healthcare services by healthcare professionals of multiple different disciplines of medicine and enabling stationary treatment." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000118 "hospital" xsd:string is_obsolete: true @@ -4144,7 +4178,7 @@ id: OMRSE:00000023 name: collection of humans def: "An object aggregate all of whose components are human beings." [] comment: An object aggregate all of whose components are human beings. -is_a: OMRSE:00000022 ! collection of organisms +is_a: OMRSE:00000022 ! aggregate of objectual organisms relationship: OMRSE:00000020 NCBITaxon:9606 ! obsolete is-aggregate-of Homo sapiens relationship: RO:0002351 NCBITaxon:9606 {all_only="true"} ! has member Homo sapiens @@ -4153,7 +4187,7 @@ id: OMRSE:00000024 name: obsolete role in human social processes def: "A role inhering in an entity realized by social interactions in human society." [] comment: Previous definition: A role played by an entity in human social processes. -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -4188,7 +4222,7 @@ is_a: OMRSE:00000025 ! organization social role id: OMRSE:00000028 name: obsolete geopolitical organization def: "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii)." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "geopolitical organization" xsd:string is_obsolete: true @@ -4196,7 +4230,7 @@ is_obsolete: true [Term] id: OMRSE:00000029 name: obsolete geopoli organization -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "geopoli organization" xsd:string is_obsolete: true @@ -4214,7 +4248,7 @@ id: OMRSE:00000031 name: obsolete major administrative subdivision def: "A subnational entity that is the primary organizational member of a nation, is subject to the full set of laws of the nation, enjoys all the privileges established under the laws of the nation, is not a member of any other geopolitical entity, and itself governs a part of the geographical region governed by the nation." [] comment: example: Northern Ireland -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "major administrative subdivision" xsd:string is_obsolete: true @@ -4223,7 +4257,7 @@ id: OMRSE:00000032 name: obsolete geopolitical dependency def: "A subnational entity that does not possess full political independence or sovereignty as a sovereign state, but remains politically outside of the controlling state and controls a geographical region that is outside the controlling state's integral region." [] comment: Typically, the common feature is that the dependency does not conduct foreign affairs, and relegates this authority to the sovereign state. BUt otherwise, it is largely or completely autonomous relative to the administrative subdivisions. Examples include Puerto Rico (U.S.), Guam (U.S.), Greenland (Denmark), French Polynesia (France), and Falkland Islands (United Kingdom). -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000118 "geopolitical dependency" xsd:string is_obsolete: true @@ -4244,7 +4278,7 @@ property_value: IAO:0000412 "http://purl.obolibrary.org/obo/omrse/releases/2022- id: OMRSE:00000034 name: obsolete aggregate of sovereign states def: "An aggregate of sovereign states that share some feature in common, but is not an organization nor necessarily the outcome of some treaty among them." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "An aggregate of geopoli organizations that is not itself a sovereign state and whose members are only sovereign states that have some feature in common" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "aggregate of sovereign states" xsd:string @@ -4254,7 +4288,7 @@ is_obsolete: true id: OMRSE:00000035 name: obsolete aggregate of geopoli organizations def: "An object aggregate that is not itself a geopolitical organization and whose members are only geopolitical organizations that have some feature in common" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "aggregate of geopoli organizations" xsd:string @@ -4264,7 +4298,7 @@ is_obsolete: true id: OMRSE:00000036 name: obsolete aggregate of dependencies def: "An aggregate of geopoli organizations that is not itself a geopolitical dependency and whose members are only geopolitical dependencies that have some feature in common." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "aggregate of dependencies" xsd:string is_obsolete: true @@ -4273,7 +4307,7 @@ is_obsolete: true id: OMRSE:00000037 name: obsolete aggregate of major administrative subdivisions def: "An aggregate of geopoli organizations that is not itself a major administrative subdivision and whose members are only major administrative subdivisions that have some feature in common" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "aggregate of major administrative subdivisions" xsd:string is_obsolete: true @@ -4303,8 +4337,8 @@ id: OMRSE:00000041 name: obsolete intergovernmental organization def: "an intergovernmental organization that has at least three member states, that has activies in at least three states, and that is unified by some formal intergovernmental agreement" [] comment: examples:\nNorth American Free Trade Argreement [NAFTA] , Universal Postal Union [UPU], Oragnaization of American States [OAS], World Bank), Organization of Petroleum exporting countries [OPEC] United Nations [UN[, The World Trade Organization [WTO], The World Health Organization [WHO], UNICEF -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "intergovernmental organization" xsd:string property_value: IAO:0000119 "\"IGOs are organizations whose memebers include at lesat three states, that have activities in several states, and whose members are held together by a formal intergovernmental agreement ... These organizations range in size from three members (North American Free Trade Argreement [NAFTA]) to more than 190 memembers (Universal Postal Union (UPU)]. Memebers may come from primarily one georgraphic regioni (Oragnaization of American States [OAS]) or from all geographic regions (World Bank). although soem IGOs are designed to achieve a single purpose (Organization of Petroleum exporting countries [OPEC]), others have been developed for multiple tasks (United Nations [UN}). ... IGOs are recognized subjects of international law with separate standing fromt heir member states.\" Karns and Mingst I(2004) p. 7" xsd:string @@ -4315,8 +4349,8 @@ id: OMRSE:00000042 name: obsolete nongovernmental organization def: "a geopolitical organization that is voluntary and private, whose members are individual persons or organizations that come together to acheive a common purpose." [] comment: Examples:\nInternaltion Federation of Red Cross and Red Crescent Societies, Oxfam, CARE, Doctors Without Borders, World Wildlife Fund, Transparency International, Human Rights Watch, Amnesty International, and Save the Children. -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000118 "nongovernmental organizations" xsd:string property_value: IAO:0000119 "NGOs are private voluntary organizations whose members are individuals or associations that come together to acheive a common purpose. Some organizations are formed to advocate a particular cause such as human rights, peace, or envirnomental projetion. Others are established to provide services such as disaster relief, humantarian aid in war-torn socieities, or development assistance. ... National level groups are often called interest or pressure groups, and many of them are now linked to counterpart groups in other countries through transnational networks or federations. International NGOs, like IGOs, may draw their members from one region or several regions, and they may have very specific functions or be multi-functional.\n\nKarns and Mingst (2004) p. 10f." xsd:string is_obsolete: true @@ -4325,8 +4359,8 @@ is_obsolete: true id: OMRSE:00000043 name: obsolete private governance organizations comment: Examples: private bond-rating agencies such as Moody's Investors Service, International Chamber of Commerce, Worldwide Responsible Apparel Manufacturing Principles, Forest Stewardship -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Katrina Donovan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Katrina Donovan" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "private governance organizations" xsd:string property_value: IAO:0000119 "\"Although the very meaning of the term is controversial, it involves authoritative decsionmaking in areas that once were part of national legal frameworks, the government, the sovereign state, or the public sector.\"\n\nKarns and Mingst (2004) p. 14." xsd:string @@ -4337,7 +4371,7 @@ id: OMRSE:00000044 name: obsolete governmental organization def: "An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii). \n\nNote: this definition was taken over from \"geopolitical organization\"." [] comment: IMPORTANT: The label "geopolitical organization" was previously used for OMRSE_00000044 (governmental organization). "geopoli organization" is a label for a new and different class. -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "governmental organization" xsd:string is_obsolete: true @@ -4347,7 +4381,7 @@ id: OMRSE:00000045 name: obsolete sovereign state def: "A governmental organization with a defined territory on which it exercises internal and external sovereignty, a permanent population, a government, and the capacity to enter into relations with other sovereign states." [] comment: Per Wikipedia, the word 'nation' does not always refer to soverign states. For example, the "nation of Islam". -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "nation" xsd:string property_value: IAO:0000118 "nation state" xsd:string @@ -4359,7 +4393,7 @@ is_obsolete: true id: OMRSE:00000046 name: obsolete subnational entity def: "a governmental organization that has a local, regional, or territorial government that recognizes a sovereign state as its higher political authority" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "subnational entity" xsd:string @@ -4369,7 +4403,7 @@ is_obsolete: true id: OMRSE:00000047 name: obsolete supranational entity comment: e.g., the EU -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000118 "supranational entity" xsd:string is_obsolete: true @@ -4635,7 +4669,7 @@ property_value: IAO:0000119 "http://www.census.gov/cps/about/cpsdef.html\n\nlast id: OMRSE:00000083 name: obsolete OMB ethnic identity datum def: "An ethnic identity datum that is the output of an ethnic identification process that uses OMB terminology for ethnicity or terminology that is mapped the OMB ethnicity terms." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB ethnic identity information content entity @@ -4648,7 +4682,7 @@ is_a: BFO:0000038 ! one-dimensional temporal region [Term] id: OMRSE:00000085 name: obsolete socio-legal human social role -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "A role that concretizes a socio-lega generically dependent continuant" xsd:string property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true @@ -4731,7 +4765,7 @@ is_a: BFO:0000038 ! one-dimensional temporal region id: OMRSE:00000098 name: obsolete racial identity datum def: "A racial identity is an information content entity that is the output of some racial identitification process and is intended to be a truthful statement about the genetic or cultural race of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: racial identity information content entity @@ -4743,7 +4777,7 @@ name: racial identification process id: OMRSE:00000100 name: obsolete ethnic identity datum def: "An ethnic identity datum is an information content entity that is the output of some ethnic identitification process and is intended to be a truthful statement about the cultural or national heritage of a person. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: ethnic identity information content entity @@ -4921,7 +4955,7 @@ is_a: BFO:0000034 ! function [Term] id: OMRSE:00000124 name: obsolete residential function -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: residence function (OMRSE:00000075) @@ -4943,7 +4977,7 @@ property_value: IAO:0000118 "discharge process" xsd:string id: OMRSE:00000127 name: obsolete hispanic or latino identity datum def: "An OMB ethnic identity datum that indicates the person identified is of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Hispanic or Latino identity information content entity @@ -4952,7 +4986,7 @@ replaced_by: OMB Hispanic or Latino identity information content entity id: OMRSE:00000128 name: obsolete not hispanic or latino identity datum def: "An OMB ethnic identity datum that indicates the person identified is not of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin regardless of race." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB not Hispanic or Latino identity information content entity @@ -4980,8 +5014,8 @@ relationship: OBI:0000299 OMRSE:00000185 ! has_specified_output obsolete OMB rac id: OMRSE:00000132 name: obsolete identity datum def: "An identity datum is an information content entity that is the output of some identitification process and is intended to be a truthful statement about a person's social identity. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:creator "Amanda Hicks" xsd:string is_obsolete: true replaced_by: social identity information content entity @@ -4989,8 +5023,8 @@ replaced_by: social identity information content entity id: OMRSE:00000133 name: obsolete gender identity datum def: "A gender identity is an information content entity that is the output of some gender identitification process and is intended to be a truthful statement about a person's subjective sense of their gender. Unlike data items they are not necessilary contributed or acquired by a reliable method." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:creator "Amanda Hicks" xsd:string is_obsolete: true replaced_by: gender identity information content entity @@ -4998,7 +5032,7 @@ replaced_by: gender identity information content entity id: OMRSE:00000134 name: identification process is_a: IAO:0021003 ! social act -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000135 @@ -5008,7 +5042,7 @@ name: gender identification process id: OMRSE:00000138 name: obsolete female gender identity datum def: "a gender identity datum resulting from a gender identification process in which ‘female’ is selected based on the participant's subjective sense of gender" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: female gender identity information content entity @@ -5029,7 +5063,7 @@ is_a: OMRSE:00000139 ! surgeon role id: OMRSE:00000141 name: obsolete male gender identity datum def: "a gender identity datum resulting from a gender identification process in which ‘male’ is selected based on the participant's subjective sense of gender" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string property_value: IAO:0000119 "" xsd:string is_obsolete: true @@ -5043,8 +5077,8 @@ is_a: IAO:0000030 ! information content entity intersection_of: IAO:0000030 ! information content entity intersection_of: IAO:0000136 APOLLO_SV:00000532 ! is about human travel relationship: IAO:0000136 APOLLO_SV:00000532 ! is about human travel -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string property_value: IAO:0000119 "https://github.com/ufbmi/OMRSE/issues/79" xsd:anyURI [Term] @@ -5054,9 +5088,9 @@ is_a: IAO:0000028 ! symbol intersection_of: IAO:0000028 ! symbol intersection_of: IAO:0000219 OMRSE:00000076 ! denotes household relationship: IAO:0000219 OMRSE:00000076 ! denotes household -property_value: http://purl.org/dc/elements/1.1/contributor "A symbol that denotes a specific household" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "A symbol that denotes a specific household" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000144 @@ -5066,14 +5100,14 @@ is_a: IAO:0000028 ! symbol intersection_of: IAO:0000028 ! symbol intersection_of: IAO:0000219 PCO:0000020 ! denotes family relationship: IAO:0000219 PCO:0000020 ! denotes family -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/creator "Amanda Hicks" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:creator "Amanda Hicks" xsd:string [Term] id: OMRSE:00000145 name: obsolete self-identity data item def: "an identity datum that has been asserted by the person whom it is about" [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true @@ -5182,7 +5216,7 @@ property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] id: OMRSE:00000162 name: obsolete medical advice -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] @@ -5215,7 +5249,7 @@ relationship: BFO:0000066 OMRSE:00000074 ! occurs in housing unit [Term] id: OMRSE:00000168 name: obsolete questions asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000198 @@ -5249,7 +5283,7 @@ relationship: BFO:0000054 OGMS:0000097 ! realized in health care encounter [Term] id: OMRSE:00000173 name: obsolete material information bearer of question text plus answer set -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] @@ -5265,20 +5299,20 @@ is_a: OMRSE:00000163 ! response to a question asking process [Term] id: OMRSE:00000176 name: obsolete identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true [Term] id: OMRSE:00000177 name: obsolete ethnic identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000199 [Term] id: OMRSE:00000178 name: obsolete race identity question asking process -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass is_obsolete: true replaced_by: http://purl.obolibrary.org/obo/OMRSE_00000200 @@ -5291,7 +5325,7 @@ is_a: OMRSE:00000175 ! response to an identity question asking process id: OMRSE:00000180 name: obsolete American Indian or Alaska Native identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB American Indian or Alaska Native identity information content entity @@ -5300,7 +5334,7 @@ replaced_by: OMB American Indian or Alaska Native identity information content e id: OMRSE:00000181 name: obsolete Asian identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Asian identity information content entity @@ -5309,7 +5343,7 @@ replaced_by: OMB Asian identity information content entity id: OMRSE:00000182 name: obsolete black or African American identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the black racial groups of Africa." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB black or African American identity information content entity @@ -5318,7 +5352,7 @@ replaced_by: OMB black or African American identity information content entity id: OMRSE:00000183 name: obsolete Native Hawaiian or other Pacific Islander identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB Native Hawaiian or other Pacific Islander identity information content entity @@ -5327,7 +5361,7 @@ replaced_by: OMB Native Hawaiian or other Pacific Islander identity information id: OMRSE:00000184 name: obsolete white identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms and that indicates that the subject of the identity has origins in any of the original peoples of Europe, the Middle East, or North Africa." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB white identity information content entity @@ -5336,7 +5370,7 @@ replaced_by: OMB white identity information content entity id: OMRSE:00000185 name: obsolete OMB racial identity datum def: "A racial identity that is the output of a racial identification process that uses OMB terminology for race or terminology that is mapped the OMB race terms." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Amanda Hicks" xsd:string is_obsolete: true replaced_by: OMB racial identity information content entity @@ -5384,10 +5418,10 @@ id: OMRSE:00000192 name: obsolete communication def: "A process in which some participant shares some information content entity about some state of that participant with some other participant." [] comment: The term 'participant' in the definition need not refer to a human agent. -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -5395,10 +5429,10 @@ is_obsolete: true id: OMRSE:00000193 name: obsolete linguistic competence def: "A disposition inhering in a material entity that, if realized, is realized by that material entity’s communicating via some linguistic concretization." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -5406,10 +5440,10 @@ is_obsolete: true id: OMRSE:00000194 name: obsolete language def: "A disposition inhering in a linguistic community that (i) is a maximal aggregate of communicatively compatible linguistic competences, and (ii) if realized, is realized by any and all realizations of those linguistic competences." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string is_obsolete: true @@ -5419,19 +5453,19 @@ name: linguistic community def: "A maximal aggregate of material entities such that each member bears a linguistic competence for the same language." [] is_a: BFO:0000040 ! material entity relationship: RO:0000053 OMRSE:00002069 ! bearer_of language -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] id: OMRSE:00000196 name: obsolete expression of preferred language def: "A communication in which some participant states a preference for some communicative process to be in a certain language, and that has a concretization of a preferred language information content entity as its specified output." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string is_obsolete: true @@ -5439,10 +5473,10 @@ is_obsolete: true id: OMRSE:00000197 name: obsolete preferred language information content entity def: "An information content entity that (i) is about some person, some language, and some linguistic competence; and (ii) conveys the language with which that person prefers to communicate within some given context." [] -is_a: ObsoleteClass -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +is_a: oboInOwl:ObsoleteClass +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string is_obsolete: true @@ -5503,11 +5537,11 @@ name: social identity information content entity def: "An information content entity that is intended to be a truthful statement about some person and whether that person identifies as some particular aspect of social identity—such as a gender, an ethnicity, a race, or a sexual orientation—where the sense of identifying may correspond to either (i) an aspect of one’s cognitive representation of oneself, (ii) how one prefers to be regarded by others within some social context, or (iii) how one chooses to present oneself to others within some social context." [] comment: We include (i)-(iii) to acknowledge that there are different senses of "identify" that are relevant here, and that we may not always be sure which sense the person concretizing the social identity information content entity intended. While (i) concerns how one thinks of oneself, (ii) and (iii) are more focused on one's interactions with others. Importantly, some choose not to share with others how they identify in the sense of (i). For example, one can consider oneself to be some certain gender without either wanting others to know or choosing to present oneself in a corresponding way. We distinguish (ii) and (iii) because one can prefer to be regarded some certain way without attempting to present oneself in any corresponding way. is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5516,11 +5550,11 @@ name: ethnic identity information content entity def: "A social identity information content entity that is about whether some person identifies as some ethnicity." [] comment: Ethnicity is separate from but related to racial identity. It refers more to identifying with a particular culture than with individuals similar in physical appearance. It includes things like Hispanic ethnicity (which spans many nations) and national cultural identities like Irish and ethnic groups within nations such as Catalan and Armenian. is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5529,11 +5563,11 @@ name: OMB ethnic identity information content entity def: "An ethnic identity information content entity that uses OMB terminology for ethnicity or terminology that is strictly mapped onto the OMB ethnicity terms." [] comment: OMB dichotomizes ethnicity into Hispanic or Latino and Not Hispanic or Latino, and ignores all other forms of ethnicity. is_a: OMRSE:00000205 ! ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5542,11 +5576,11 @@ name: OMB Hispanic or Latino identity information content entity def: "An OMB ethnic identity information content entity that is about some person's identifying as Hispanic or Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." [] comment: It comprehends people of Portuguese culture or origin in Brazil. is_a: OMRSE:00000206 ! OMB ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5554,11 +5588,11 @@ id: OMRSE:00000208 name: OMB not Hispanic or Latino identity information content entity def: "An OMB ethnic identity information content entity that is about some person's identifying as neither Hispanic nor Latino, which are intended to mean being of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race." [] is_a: OMRSE:00000206 ! OMB ethnic identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5566,11 +5600,11 @@ id: OMRSE:00000209 name: gender identity information content entity def: "A social identity information content entity that is about whether some person identifies as some gender." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5578,11 +5612,11 @@ id: OMRSE:00000210 name: female gender identity information content entity def: "A gender identity information content entity that is about some person's identifying as female in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5590,11 +5624,11 @@ id: OMRSE:00000211 name: male gender identity information content entity def: "A gender identity information content entity that is about some person's identifying as male in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5602,11 +5636,11 @@ id: OMRSE:00000212 name: non-binary identity information content entity def: "A gender identity information content entity that is about some person's identifying as non-binary in gender." [] is_a: OMRSE:00000209 ! gender identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5614,11 +5648,11 @@ id: OMRSE:00000213 name: racial identity information content entity def: "A social identity information content entity that is about whether some person identifies as some race." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5626,11 +5660,11 @@ id: OMRSE:00000214 name: OMB racial identity information content entity def: "A racial identity information content entity that uses OMB terminology and definitions for race or terminology that is strictly mapped onto the OMB race terms." [] is_a: OMRSE:00000213 ! racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5639,11 +5673,11 @@ name: OMB American Indian or Alaska Native identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as American Indian or Alaska Native, which is intended to mean having origins in any of the original peoples of North and South America (including Central America), and maintains tribal affiliation or community attachment." [] comment: This definition corresponds to that used by OMB. It is worth noting that the OMB definition from which this one is derived is problematic, in that it implies that one's race cannot be Native American or Alaskan Native unless one maintains tribal affiliations or community attachment. is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5651,11 +5685,11 @@ id: OMRSE:00000216 name: OMB Asian identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as Asian, which is intended to mean having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5663,11 +5697,11 @@ id: OMRSE:00000217 name: OMB black or African American identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as black or African American which is intended to mean having origins in any of the black racial groups of Africa." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5675,11 +5709,11 @@ id: OMRSE:00000218 name: OMB Native Hawaiian or other Pacific Islander identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as Native Hawaiian or other Pacific Islander, which is intended to mean having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5687,11 +5721,11 @@ id: OMRSE:00000219 name: OMB white identity information content entity def: "An OMB racial identity information content entity that is about some person's identifying as white which is intended to mean having origins in any of the original peoples of Europe, the Middle East, or North Africa." [] is_a: OMRSE:00000214 ! OMB racial identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5699,22 +5733,22 @@ id: OMRSE:00000220 name: sexual orientation identity information content entity def: "A social identity information content entity that is about whether some person identifies as having some sexual orientation." [] is_a: OMRSE:00000204 ! social identity information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Amanda Hicks" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Amanda Hicks" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string [Term] id: OMRSE:00000221 name: residence ZIP code information content entity def: "An information content entity that is about some geographical region, in which a postal delivery route denoted by a particular ZIP code is realized, and that is the specified output of a disclosure of residence." [] is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5722,7 +5756,7 @@ id: OMRSE:00000222 name: debt obligation def: "A directive information entity that prescribes that something will be transferred from some human or organization that is the bearer of a duty holder role to another human or organization that is the bearer of a claimant role." [] is_a: IAO:0000033 ! directive information entity -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "debt obligation" xsd:string property_value: IAO:0000112 "Three Arrows Capital declared bankruptcy on July 1, 2022 after defaulting on a $665 million debt obligation owed to Voyager Digital." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5732,11 +5766,11 @@ id: OMRSE:00000223 name: disclosure of residence def: "A social act that creates an information content entity that is about some geographical region in which a human being dwells." [] is_a: IAO:0021003 ! social act -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5744,11 +5778,11 @@ id: OMRSE:00000224 name: electronic health record data set def: "A data set whose members are obtained from one or more electronic health records." [] is_a: IAO:0000100 ! data set -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brocchausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brocchausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "EHR data set" xsd:string @@ -5762,11 +5796,11 @@ comment: The outcome of the adjudication of a claim in the claims dataset could comment: The reason we say billing data are only part of the input is because we are not conflating the insurance claim with the bill. It is our understanding that the provider’s bill of services is either part of the claim or “attached” to it in some manner, but doesn’t constitute the entire claim itself. comment: The sources of these data are held by insurers or other health plan providers. is_a: IAO:0000100 ! data set -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brocchausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brocchausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] @@ -5774,11 +5808,11 @@ id: OMRSE:00000226 name: health care billing data set def: "A data set whose members are obtained from billing-related data sources that (i) are generated by a health care organization as a result of internal administrative processes, and (ii) are about services rendered or materials used during some health care encounter." [] is_a: IAO:0000100 ! data set -property_value: http://purl.org/dc/elements/1.1/contributor "Alan Ruttenberg" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Alan Ruttenberg" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5786,7 +5820,7 @@ id: OMRSE:00000227 name: health care administrative process def: "A planned process (i) that is neither a health care process nor an ancillary health care process, and (ii) in which some employee of a health care organization manages, or helps to manage, the performance of tasks that realize the functions of that organization." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000112 "Recording data in an EHR. Financial tasks for a healthcare organization. Scheduling shifts for health care workers." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5795,7 +5829,7 @@ id: OMRSE:00000228 name: principal diagnosis-assignment process def: "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." [] is_a: OMRSE:00000227 ! health care administrative process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5803,7 +5837,7 @@ id: OMRSE:00000229 name: secondary diagnosis-assignment process def: "A health care administrative process that has as input a diagnosis, and has as output a value indicating that diagnosis is about an underlying condition that is distinct from the condition that prompts the admission process that starts the encounter during which the diagnostic process that outputs that diagnosis begins." [] is_a: OMRSE:00000227 ! health care administrative process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -5811,12 +5845,12 @@ id: OMRSE:00000230 name: county smoking survey plan specification def: "A survey plan specification that aims to collect information about the smoking behavior or lack thereof of a population on a county level. Concretization of a smoking survey plan that is stratified by county." [] is_a: OBIB:0000701 ! survey plan specification -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey plan specification." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -5825,12 +5859,12 @@ id: OMRSE:00000231 name: county smoking survey execution def: "A survey execution that realizes the concretization of a smoking survey plan specification that is stratified by county." [] is_a: OBIB:0000710 ! survey execution -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey execution." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -5840,12 +5874,12 @@ name: county smoking survey data def: "Survey data that is the specified output of a county smoking survey execution." [] is_a: OBIB:0000667 ! survey data relationship: OBI:0000312 OMRSE:00000231 ! is_specified_output_of county smoking survey execution -property_value: http://purl.org/dc/elements/1.1/contributor "Hansi Zhang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Hansi Zhang" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "The Alachua county smoking survey data." xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string @@ -5870,7 +5904,7 @@ id: OMRSE:00000235 name: money def: "A debt obligation between two parties that has part a scalar value specification and whose concretizations indicate that their bearers can be used in a financial transaction or payment of debt, or as a measure of the value of some entity in a financial valuation process or prospective financial valuation process." [] is_a: OMRSE:00000222 ! debt obligation -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "money" xsd:string property_value: IAO:0000112 "Todd does not have enough money to buy more plants at the horticultural club's poinsettia sale." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5880,7 +5914,7 @@ id: OMRSE:00000236 name: currency def: "A material entity that is the bearer of a concretization of money and is created by some governmental organization or on behalf of some governmental organization that has authorized its creation." [] is_a: BFO:0000040 ! material entity -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "currency" xsd:string property_value: IAO:0000112 "US currency is an accepted form of legal tender, not just in the United States, but in many countries around the world, such as El Salvador." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5890,7 +5924,7 @@ id: OMRSE:00000237 name: exchange of ownership def: "A planned process whereby one agent (or active participant) or a group of agents transfer ownership of some property to another agent (or active participant) or group of agents in the process, who in return transfer ownership of some their property to the first agent (or active participant)." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "exchange of ownership" xsd:string property_value: IAO:0000112 "Tom exchanged ownership of his computer for Tina's scooter." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5901,7 +5935,7 @@ id: OMRSE:00000238 name: financial transaction def: "A planned process whereby one participant partly or completely fulfills an obligation to another participant by transferring ownership of some other debt obligation, which is typically money." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "financial transaction" xsd:string property_value: IAO:0000112 "Apple acquired semiconductors from Samsung in a financial transaction yesterday." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5912,7 +5946,7 @@ id: OMRSE:00000239 name: payment of debt def: "A planned process whereby ownership of some entity of value is transferred by one participant to another to fulfill some obligation, on their behalf, after some service is performed or the ownership of some entity is exchanged." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "payment of debt" xsd:string property_value: IAO:0000112 "I made a debt payment with my credit card company yesterday and no longer owe them money." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5922,7 +5956,7 @@ id: OMRSE:00000240 name: financial valuation process def: "A planned process that has as specified output some scalar measurement datum that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some other material entity." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "financial valuation process" xsd:string property_value: IAO:0000112 "The financial valuation of Ravi's car today determined that the car is worth $2000." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5932,7 +5966,7 @@ id: OMRSE:00000241 name: prospective financial valuation process def: "A planned process that has as specified output some predicted value that is about an entity—such as a material good or a service—and is measured in terms of the quantity of some material entity at some point in the future." [] is_a: OBI:0000011 ! planned process -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000111 "prospective financial valuation process" xsd:string property_value: IAO:0000112 "The prospective valuation of my company's stock indicates strong optimism for our financial growth over the next few years." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -5942,7 +5976,7 @@ id: OMRSE:00000242 name: intimate partnership def: "Relational quality inhering in persons by virtue of being each other’s spouse, boyfriend/girlfriend, dating partner, or ongoing sexual partner." [] is_a: BFO:0000145 ! relational quality -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5950,7 +5984,7 @@ id: OMRSE:00000243 name: abusive behavior def: "Behavior that is cruel, violent, demeaning, or invasive." [] is_a: GO:0007610 ! behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5958,7 +5992,7 @@ id: OMRSE:00000244 name: psychologically abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: mentally or emotionally harm or exert control over another." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5966,7 +6000,7 @@ id: OMRSE:00000245 name: physically abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: harm, restrain, or coerce another through physical force." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5974,7 +6008,7 @@ id: OMRSE:00000246 name: sexually abusive behavior def: "Abusive behavior in which the aggressor does or attempts to do the following: force or coerce another to participate in a sexual act to which the latter has not freely given consent." [] is_a: OMRSE:00000243 ! abusive behavior -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -5982,7 +6016,7 @@ id: OMRSE:00000249 name: birth attendant role def: "A health care provider role that is realized in maintaining the health of a human being during their pregnancy and both them and the neonate during labor, delivery, and postpartum." [] is_a: OMRSE:00000012 ! health care provider role -property_value: http://purl.org/dc/elements/1.1/contributor "https://orcid.org/0000-0001-6595-0902" xsd:string +property_value: dc:contributor "https://orcid.org/0000-0001-6595-0902" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "skilled birth attendant role" xsd:string @@ -5991,10 +6025,10 @@ id: OMRSE:00000250 name: linguistic competence information content entity def: "An information content entity that conveys that a particular person has a linguistic competence for a particular language" [] is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6002,10 +6036,10 @@ id: OMRSE:00000251 name: primary language information content entity def: "A linguistic competence information content entity that conveys the language is the one for which the person has their most proficient linguistic competence." [] is_a: OMRSE:00000250 ! linguistic competence information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6013,10 +6047,10 @@ id: OMRSE:00000252 name: language-at-home information content entity def: "A linguistic competence information content entity that conveys the person uses the language at home." [] is_a: OMRSE:00000250 ! linguistic competence information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "Barry Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jobst Landgrebe" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Barry Smith" xsd:string +property_value: dc:contributor "Jobst Landgrebe" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6024,7 +6058,7 @@ id: OMRSE:00000253 name: religious gathering def: "A social act or aggregate of social acts that include some worship, prayer, or proselytizing." [] is_a: IAO:0021003 ! social act -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6032,7 +6066,7 @@ id: OMRSE:00000254 name: hospital bed capacity data item def: "A count of the number of patients that some hospital facility has the capacity for." [] is_a: APOLLO_SV:00000032 ! count -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6040,7 +6074,7 @@ id: OMRSE:00000255 name: proportion of population in an elementary occupation def: "A data item that is the output of some data transformation that takes as input the number of individuals in a population who are occupation holders and has as output the proportion of those individuals who are classified by the European Skills, Competences, Qualifications and Occupations as door-to-door sales worker, news or street vendors; building cleaning workers; pressers, textile, garment, or related materials; septic tank servicers or sewer pipe cleaners; farmworkers or laborers, crop, nursery, or greenhouse; farmworkers, farm, ranch, or aquacultural animal; agricultural workers, all other; landscaping or groundskeeping workers; grounds maintenance workers, all other; forest or conservation workers; logging workers, all other; fishing or hunting workers; helpers--extraction workers; extraction workers, all other; helpers, construction trades; rail-track laying or maintenance equipment operators; construction laborers; helpers--production workers; production workers, all other; laborers or material movers; refuse or recyclable material collectors; couriers or messengers; material moving workers, all other; aircraft cargo handling supervisors; first-line supervisors of helpers, laborer, or material mover, hand; first-line supervisors of transportation worker, all other; tank car, truck, or ship loaders; cooks, fast food; cooks, short order; food preparation workers; dining room or cafeteria attendants or bartender helpers; dishwashers; food preparation or serving related workers, all other; personal care or service workers, all other; baggage porters or bellhops; maintenance or repair workers, general; installation, maintenance, or repair workers, all other; meter readers, utilities; coin, vending, or amusement machine servicers or repairers; motion picture projectionists; ushers, lobby attendants, or ticket takers; amusement or recreation attendants; locker room, coatroom, or dressing room attendants; and parking attendants." [] is_a: IAO:0000027 ! data item -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000116 "Currently, the Occupation Ontology (OccO ) only represents occupations as they are defined by O*NET. We define this class extentionally according to the O*NET-defined occupations that map to occupations in ESCO that are classified as elementary occupations." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -6049,15 +6083,15 @@ id: OMRSE:00000256 name: Medicaid policy holder role def: "A policy holder role that inheres in a person who participates in the creation of an insurance policy with a US state Medicaid agency." [] is_a: OMRSE:00000094 ! policy holder role -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string [Term] id: OMRSE:00000257 name: insurance company def: "An insurance organization that is privately owned and that participates in the creation of insurance policies in return for some money from the policy holder." [] is_a: OMRSE:00000093 ! insurance organization -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6065,7 +6099,7 @@ id: OMRSE:00000258 name: private insurance policy holder role def: "A policy holder role that inheres in a person who participates in the creation of an insurance policy with an insurance company." [] is_a: OMRSE:00000094 ! policy holder role -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6073,7 +6107,7 @@ id: OMRSE:00000259 name: US state Medicaid agency def: "A government organization that administers a given US state's Medicaid program by participating in the creation of insurance policies with eligible people and by participating in some payment of debt for a specified aggregate of health care encounters, specified processes (e.g, treatments, diagnostic tests) that are part of those encounters, and material entities used or prescribed during the encounters (e.g., medicine, prosthetics, glasses)." [] is_a: GEO:000000400 ! governmental organization -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6081,8 +6115,8 @@ id: OMRSE:00000262 name: categorization scheme def: "Information content entity that characterizes some aggregate of entities as partitioned into distinct subgroups, thereby demarcating them as categories." [] is_a: IAO:0000030 ! information content entity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6091,8 +6125,8 @@ name: social categorization scheme def: "Categorization scheme that divides humans into groups considered by themselves or others as distinct on the basis of assumed common characteristics." [] is_a: OMRSE:00000262 ! categorization scheme relationship: OMRSE:00000263 OMRSE:00000023 {all_only="true"} ! demarcates collection of humans -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6101,8 +6135,8 @@ name: social category def: "Collection of humans demarcated by some social categorization scheme." [] is_a: OMRSE:00000023 ! collection of humans relationship: OMRSE:00000264 OMRSE:00000265 ! demarcated by social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6110,8 +6144,8 @@ id: OMRSE:00000268 name: racial categorization scheme def: "Social categorization scheme based on characteristics assumed to be biologically hereditary and to result in part from common locality of ancestors." [] is_a: OMRSE:00000265 ! social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6120,8 +6154,8 @@ name: racial category def: "Social category demarcated by some racial categorization scheme." [] is_a: OMRSE:00000267 ! social category relationship: OMRSE:00000264 OMRSE:00000268 ! demarcated by racial categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6129,8 +6163,8 @@ id: OMRSE:00000270 name: ethnic categorization scheme def: "Social categorization scheme based on characteristics that are primarily cultural—such as ancestry, history, national or tribal background, cultural attachments or traditions, past linguistic heritage, religious affiliations, caste, or claimed kinship." [] is_a: OMRSE:00000265 ! social categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6139,8 +6173,8 @@ name: ethnic category def: "Social category demarcated by some ethnic categorization scheme." [] is_a: OMRSE:00000267 ! social category relationship: OMRSE:00000264 OMRSE:00000270 ! demarcated by ethnic categorization scheme -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6148,8 +6182,8 @@ id: OMRSE:00000274 name: personal data disclosure def: "Communication in which a person reports some data items about either that person or another person." [] is_a: OMRSE:00002068 ! communication -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6157,8 +6191,8 @@ id: OMRSE:00000277 name: subjective representation def: "Cognitive representation in which the representation’s bearer is represented as being its bearer." [] is_a: MF:0000031 ! cognitive representation -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6166,8 +6200,8 @@ id: OMRSE:00000278 name: social identity def: "Subjective representation of its bearer as being a member of some social category." [] is_a: OMRSE:00000277 ! subjective representation -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6175,8 +6209,8 @@ id: OMRSE:00000279 name: racial identity def: "Social identity for which the category is a racial category." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6184,8 +6218,8 @@ id: OMRSE:00000281 name: ethnic identity def: "Social identity for which the category is an ethnic category." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6193,8 +6227,8 @@ id: OMRSE:00000282 name: behavioral identity def: "Social identity for which the category is also a behaviorally distinct group defined by its members degree of participation in some type of behavior." [] is_a: OMRSE:00000278 ! social identity -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6202,14 +6236,14 @@ id: OMRSE:00000284 name: occupation disposition def: "A disposition that, if realized, is realized when the bearer intends to, and does, exercise abilities and skills in pursuit of obtaining or maintaining an job role." [] is_a: BFO:0000016 ! disposition -property_value: http://purl.org/dc/elements/1.1/contributor "Damion Dooley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John Beverley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string +property_value: dc:contributor "Damion Dooley" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John Beverley" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6217,15 +6251,15 @@ id: OMRSE:00000285 name: occupation activity def: "A process in which an occupation holder participates that realizes either an occupation disposition or job role." [] is_a: BFO:0000015 ! process -property_value: http://purl.org/dc/elements/1.1/contributor "Damion Dooley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Eric Merrell" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Jie Zheng" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John Beverley" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "John W. Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sam Smith" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun He" xsd:string +property_value: dc:contributor "Damion Dooley" xsd:string +property_value: dc:contributor "Eric Merrell" xsd:string +property_value: dc:contributor "Jie Zheng" xsd:string +property_value: dc:contributor "John Beverley" xsd:string +property_value: dc:contributor "John W. Judkins" xsd:string +property_value: dc:contributor "Sam Smith" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Yongqun He" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "occupation process" xsd:string @@ -6234,10 +6268,10 @@ id: OMRSE:00000286 name: U.S. veteran role def: "A human role within an organization that inheres in a person who has served in a branch of the U.S. military, is not currently serving in the U.S. military, and the person's service ended in accordance to conditions defined by the U.S. government." [] is_a: OMRSE:00000086 ! human role within an organization -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William D. Duncan" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William D. Duncan" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000119 "38 U.S.C. §101(2), as well as “Determining Veteran Status” by the U.S. Department of Veterans Affairs (VA) Office of Small and Disadvantaged Business Utilization (OSDBU): https://www.va.gov/OSDBU/docs/Determining-Veteran-Status.pdf." xsd:string @@ -6246,9 +6280,9 @@ id: OMRSE:00000500 name: job role data item def: "A data item that is about a person's job role and/or its realization." [] is_a: IAO:0000027 ! data item -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint. Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "S. Clint. Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "Can be about any aspect of employment, such as salary, work location, or employer." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000118 "employment data item" xsd:string @@ -6285,13 +6319,21 @@ is_a: IAO:0000027 ! data item [Term] id: OMRSE:00000507 +name: Afar name: obsolete non-binary gender identity datum def: "A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender." [] comment: Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.)\n\nExamples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000111 "non-binary gender identity datum" xsd:string property_value: IAO:0000117 "Paul Fabry" xsd:string property_value: IAO:0000117 "William Hogan" xsd:string +property_value: IAO:0000118 "Afaraf" xsd:string +property_value: IAO:0000118 "Qafar af" xsd:string +property_value: IAO:0000118 "Qafaraf" xsd:string +property_value: IAO:0000118 "’Afar Af" xsd:string +property_value: OMRSE:00002025 "aa" xsd:string +property_value: OMRSE:00002026 "aar" xsd:string +property_value: OMRSE:00002027 "aar" xsd:string is_obsolete: true replaced_by: non-binary gender identity information content entity @@ -6507,8 +6549,8 @@ id: OMRSE:00002047 name: kindergarten education program def: "A primary education plan specification that specifies the competencies and information content entities that should be acquired by students in the first year of primary education in the United States." [] is_a: OMRSE:00002034 ! primary education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T12:38:43Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T12:38:43Z" xsd:dateTime property_value: IAO:0000111 "kindergarten education plan specification" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6517,8 +6559,8 @@ id: OMRSE:00002048 name: undergraduate higher education program def: "A higher education plan specification that specifies the awarding of an associates or bachelors degree in the United States or equivalent degrees in other nations, and specifies as a pre-requisite the completion of some secondary education program." [] is_a: OMRSE:00002042 ! higher education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T12:52:46Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T12:52:46Z" xsd:dateTime property_value: IAO:0000111 "undergraduate higher education plan specification" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "undergraduate education program" xsd:string @@ -6530,8 +6572,8 @@ def: "A higher education plan specification that specifies the awarding of a gra comment: Graduate degrees include masters, PhD, MD, PharmD, and other post-graduate professional degrees. To distinguish MS/PhD from the professional ones, subclass this class. comment: The prerequisite degree is at the bachelors level or equivalent. An associates degree is almost never sufficient for entry into graduate education programs. is_a: OMRSE:00002042 ! higher education program -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:01:34Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:01:34Z" xsd:dateTime property_value: IAO:0000111 "graduate higher education plan specification" xsd:string property_value: IAO:0000118 "graduate education program" xsd:string @@ -6541,8 +6583,8 @@ name: highest level of education is grades 1 through 6 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of first through sixth grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of primary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:23:46Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:23:46Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades one through six socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6552,8 +6594,8 @@ name: highest level of education is grades 7 through 9 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of seventh (7th) through ninth (9th) grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of lower secondary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:27:15Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:27:15Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades seven through nine socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6563,8 +6605,8 @@ name: highest level of education is grades 10 through 12 data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is in the range of tenth (10th) through twelfth (12th) grade." [] comment: Note: this broad, very loose level of grouping emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates completion of some to all of upper secondary education in the United States. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:27:50Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:27:50Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of grades ten through twelve socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6574,8 +6616,8 @@ name: highest level of education is completion of undergraduate degree data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some undergraduate degree." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:28:27Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:28:27Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some undergraduate degree socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6585,8 +6627,8 @@ name: highest level of education is completion of graduate certificate or degree def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some graduate certificate or degree." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:28:49Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:28:49Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some graduate degree socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6596,8 +6638,8 @@ name: highest level of education is completion of vocaational education program def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is completion of some vocational education program." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:29:28Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:29:28Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of some vocational education program socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6607,8 +6649,8 @@ name: highest level of education is completion of kindergarten data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is pre-kindergarten." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI.\n\nIt indicates that a person has completed only early childhood education and nothing more. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:47:38Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:47:38Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of kindergarten socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6618,8 +6660,8 @@ name: highest level of education is completion of pre-kindergarten data item def: "A highest level of education socio-economic data item that represents the fact that the highest level of education achieved by an individual in the United States is kindergarten." [] comment: Note: The requirement for this class emerged as an early requirement from the SODA project, funded by a PCORI Methods Grant, at the University of Florida with Dr. Yonghui Wu as PI. is_a: OMRSE:00002045 ! highest level of education data item -property_value: http://purl.org/dc/elements/1.1/creator http://orcid.org/0000-0002-9881-1017 -property_value: http://purl.org/dc/elements/1.1/date "2020-09-02T13:48:10Z" xsd:dateTime +property_value: dc:creator http://orcid.org/0000-0002-9881-1017 +property_value: dc:date "2020-09-02T13:48:10Z" xsd:dateTime property_value: IAO:0000111 "highest level of education is completion of pre-kindergarten socio-economic data item" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string @@ -6631,9 +6673,9 @@ comment: Other dispositions that it can and likely does have as dispositional pa comment: The realization of this disposition by definition realizes the bearer's linguistic competence that is a dispositional part of this disposition. The realization of the linguistic competence would be an occurrent part of the realization of this disposition (and not a temporal part). comment: Whereas linguistic competence may be afforded to non-human agents, literacy is nearly always considered in the context of human beings. is_a: BFO:0000016 ! disposition -property_value: http://purl.org/dc/elements/1.1/contributor "Jiang Bian" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Xi Yang" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Yonghui Wu" xsd:string +property_value: dc:contributor "Jiang Bian" xsd:string +property_value: dc:contributor "Xi Yang" xsd:string +property_value: dc:contributor "Yonghui Wu" xsd:string property_value: IAO:0000111 "language literacy competence" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string property_value: IAO:0000118 "human literacy" xsd:string @@ -6644,9 +6686,9 @@ id: OMRSE:00002059 name: caregiver role def: "A human social role that, if realized, is realized in providing assistance in the activities of daily living of another human being who possesses reduced capability to complete some of these activities alone." [] is_a: OMRSE:00000001 ! human social role -property_value: http://purl.org/dc/elements/1.1/contributor "John Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "John Judkins" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Term] @@ -6655,9 +6697,9 @@ name: family relationship def: "A relational quality that inheres within two or more persons related as members of a domestic group, or a number of domestic groups linked through descent from a common ancestor, marriage, or adoption." [] comment: We are also intending on including other family arrangements. This is something we are working on. is_a: BFO:0000145 ! relational quality -property_value: http://purl.org/dc/elements/1.1/contributor "John Judkins" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "John Judkins" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000119 "http://purl.obolibrary.org/obo/ERO_0002033" xsd:string [Term] @@ -6666,7 +6708,7 @@ name: monetary personal income data item def: "A data item that is about the sum of earnings for some person(s) from various forms of payment or profits." [] comment: We use the phrase ‘some person’ in the definition because this class can be about an individual's or a household's earnings. Similarly, we use 'personal income' in the label because the term is typically restricted to individuals and households. This class is also restricted to being about monetary forms of income. is_a: IAO:0000027 ! data item -property_value: http://purl.org/dc/elements/1.1/contributor "Chris Stoeckert" xsd:string +property_value: dc:contributor "Chris Stoeckert" xsd:string property_value: IAO:0000112 "Examples of monetary forms of payment include: wages, salary, or tips; interest generated by capital; dividends earned; lottery, game, or contest monetary winnings; alimony; royalties; trusts; pensions; receipt of rental payments; unemployment payments; social security payments; worker's compensation; social security payments; or profit from entrepreneurial activities." xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string @@ -6678,9 +6720,9 @@ comment: Instances include any process that brings it about that some specifical comment: Instances include, but are not limited to, processes that bring about cognitive concretizations. is_a: BFO:0000015 ! process relationship: RO:0000057 BFO:0000040 ! has_participant material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "Taking notes on a meeting is an example in which the concretization relation is newly established, since the SDCs that concretize the GDCs come into existence as the notes are written. In contrast, using slides prepared by someone else in order to convey information during a presentation is a case of using a concretization in which the performer neither brings the concretizing SDCs into existence nor is responsible for their standing in the concretization relation to the relevant GDCs. A nonlinguistic example is drawing the logo of one’s favorite brand, in which one creates a pattern that concretizes a GDC that is also concretized by patterns on products of the brand." xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string @@ -6689,9 +6731,9 @@ id: OMRSE:00002063 name: linguistic concretization-utilization process def: "A concretization-utilization process in which the utilized specifically dependent continuant concretizes the generically dependent through use of some language." [] is_a: OMRSE:00002062 ! concretization-utilization process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6700,11 +6742,11 @@ name: concretization-interpretation process def: "Process in which some participant infers that some particular specifically dependent continuant stands in the concretization relation to some particular generically dependent continuant." [] comment: The interpretation need not be accurate. It may even be the case that the specifically dependent continuant has not previously concretized anything. is_a: BFO:0000015 ! process -relationship: RO:0000057 BFO:0000020 ! has_participant specifically dependent continuant +relationship: RO:0000057 BFO:0000020 ! has_participant characteristic relationship: RO:0000057 BFO:0000040 ! has_participant material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000112 "For example, reading a text message that says, “It is raining outside,” and inferring that the words on the screen are meant to convey information about the weather. The pattern on the screen that corresponds to the words is the SDC, and the ICE about the rain is the GDC. Or, hearing your spouse say, “Can you come to the kitchen?” and then knowing that your spouse wants you to come to the kitchen. You have interpreted the patterns of the sound as concretizing a GDC about what your spouse wants. Or, seeing a drawing of a basketball player and inferring—perhaps incorrectly—that it is of Michael Jordan." xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string @@ -6713,9 +6755,9 @@ id: OMRSE:00002065 name: linguistic concretization-interpretation process def: "A concretization-interpretation process in which the specifically dependent continuant is inferred to concretize the generically dependent continuant in a way that makes use of some language." [] is_a: OMRSE:00002064 ! concretization-interpretation process -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Sarah Bost" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "Sarah Bost" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6725,9 +6767,9 @@ def: "A disposition that inheres in some material entity and is such that that, comment: When realized in a concretization-utilization process, the only relevant concretization may in some cases be a cognitive one, but that suffices to realize a linguistic competence. For example, suppose one begins to write a letter, planning out the words ahead of time, but is interrupted before beginning to write and never resumes. During the process of planning out the words and what one intends to communicate, one is already concretizing words cognitively, as well as considering which combinations of words one can use to concretize additional generically dependent continuants. In doing so, one performs processes that realize one's linguistic competence, without producing any concretizations other than those cognitive ones. is_a: BFO:0000016 ! disposition relationship: RO:0000052 BFO:0000040 ! characteristic of material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6739,9 +6781,9 @@ comment: The interpretation need not correspond exactly to what was intended by comment: The term 'participant' in the definition need not refer to a human agent. is_a: BFO:0000015 ! process relationship: RO:0000057 BFO:0000040 ! has_participant material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6750,9 +6792,9 @@ name: language def: "A disposition that (i) is an aggregate of linguistic competences, considered as forming a distinct group on the basis of perceived common characteristics, such as mutual intelligibility among their bearers, in addition to historical or cultural factors; (ii) if realized, is realized in any and all realizations of those linguistic competences; and (iii) inheres in a linguistic community." [] is_a: BFO:0000016 ! disposition relationship: RO:0002351 OMRSE:00002066 ! has member linguistic competence -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "William R. Hogan" xsd:string [Term] @@ -6760,9 +6802,9 @@ id: OMRSE:00002070 name: disclosure of preferred language def: "A communication in which some participant states a preference for some communicative process to be in a certain language, via some concretization of some preferred language information content entity." [] is_a: OMRSE:00002068 ! communication -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "S. Clint Dowland" xsd:string [Term] @@ -6772,9 +6814,9 @@ def: "An information content entity that is about some person and some language, is_a: IAO:0000030 ! information content entity relationship: IAO:0000136 BFO:0000040 ! is about material entity relationship: IAO:0000136 OMRSE:00002069 ! is about language -property_value: http://purl.org/dc/elements/1.1/contributor "Matthew Diller" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "Matthew Diller" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Mathias Brochhausen" xsd:string [Term] @@ -6784,7 +6826,7 @@ def: "A role that inheres in some entity that is realized in a social act." [] comment: Previous definition: A role played by an entity in human social processes. is_a: OMRSE:00000048 ! material entity role relationship: RO:0000052 BFO:0000040 {all_only="true"} ! characteristic of material entity -property_value: http://purl.org/dc/elements/1.1/contributor "Mathias Brochhausen" xsd:string +property_value: dc:contributor "Mathias Brochhausen" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string property_value: IAO:0000412 "http://purl.obolibrary.org/obo/omrse/releases/2023-10-08/omrse.owl" xsd:string @@ -6847,7 +6889,7 @@ property_value: OOSTT:00000030 "An advanced academic degree in the principles an id: PATO:0000001 name: quality def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] -is_a: BFO:0000020 ! specifically dependent continuant +is_a: BFO:0000020 ! characteristic [Term] id: PATO:0000051 @@ -6901,7 +6943,7 @@ id: PCO:0000020 name: family def: "A domestic group, or a number of domestic groups linked through descent (demonstrated or stipulated) from a common ancestor, marriage, or adoption." [] comment: Family membership through marriage or adoption apply primarily to human families. In most species, family membership is defined by common anscestry. -is_a: OMRSE:00000022 ! collection of organisms +is_a: OMRSE:00000022 ! aggregate of objectual organisms property_value: IAO:0000114 IAO:0000123 property_value: IAO:0000116 "Needs axioms for family relationships." xsd:string property_value: IAO:0000119 "http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C25173" xsd:string @@ -6940,7 +6982,7 @@ property_value: IAO:0000412 http://purl.obolibrary.org/obo/uo.owl id: obligee_role name: obsolete obligee role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Sarah Bost" xsd:string is_obsolete: true @@ -6948,7 +6990,7 @@ is_obsolete: true id: obligor_role name: obsolete obligor role def: "A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements." [] -is_a: ObsoleteClass +is_a: oboInOwl:ObsoleteClass property_value: IAO:0000117 "Sarah Bost" xsd:string is_obsolete: true @@ -7038,11 +7080,11 @@ id: BFO:0000062 name: preceded by def: "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco -property_value: http://purl.org/dc/terms/source "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" xsd:string property_value: IAO:0000111 "preceded by" xsd:string property_value: IAO:0000116 "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string property_value: IAO:0000118 "is preceded by" xsd:string property_value: IAO:0000118 "preceded_by" xsd:string +property_value: terms:source "http://www.obofoundry.org/ro/#OBO_REL:preceded_by" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent holds_over_chain: BFO:0000050 BFO:0000062 @@ -7108,7 +7150,7 @@ property_value: IAO:0000116 "see https://github.com/information-artifact-ontolog property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" xsd:string property_value: IAO:0000231 IAO:0000103 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -7138,7 +7180,7 @@ inverse_of: IAO:0000143 ! mentioned by id: IAO:0000143 name: mentioned by def: "Inverse of the relation 'mentions'" [] -property_value: http://purl.org/dc/elements/1.1/date "2022-01-28T07:20:08Z" xsd:dateTime +property_value: dc:date "2022-01-28T07:20:08Z" xsd:dateTime property_value: IAO:0000117 http://orcid.org/0000-0002-8844-9165 property_value: IAO:0000233 https://github.com/information-artifact-ontology/IAO/issues/250 @@ -7160,7 +7202,7 @@ id: IAO:0000220 name: obsolete_materially denotes property_value: IAO:0000116 "see https://github.com/information-artifact-ontology/IAO/issues/25&q=denote" xsd:string property_value: IAO:0000231 IAO:0000103 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -7182,14 +7224,14 @@ inverse_of: IAO:0000417 ! is quality measured as id: IAO:0000222 name: obsolete_describes property_value: IAO:0000231 IAO:0000103 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] id: IAO:0000223 name: obsolete_represents property_value: IAO:0000231 IAO:0000103 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -7271,9 +7313,9 @@ is_a: BFO:0000051 ! has part id: IAO:0020012 name: obsolete_designates def: "x designates y, if for any given group of language users, x is an information content entity, is about y, and represents y in a linguistic context.." [] -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000228 -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true replaced_by: IAO:0000219 @@ -7281,7 +7323,7 @@ replaced_by: IAO:0000219 id: IAO:0020013 name: is_borrowed_reference_to def: "x is_borrowed_reference_for y, if x is a proper name that is used to refer to one individual among a specific group after the dubbing process took place." [] -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string domain: IAO:0020000 ! identifier range: BFO:0000001 ! entity is_asymmetric: true @@ -7290,7 +7332,7 @@ is_asymmetric: true id: IAO:0020014 name: is_fixing_reference_to def: "x is_fixed_reference_for y, if x is an utterance or graphemes concretized as writing quality inhering in some independent continuant that is used to single out one individual and refer to the latter among a specific group after the." [] -property_value: http://purl.org/dc/elements/1.1/creator "Mathias Brochhausen" xsd:string +property_value: dc:creator "Mathias Brochhausen" xsd:string is_asymmetric: true [Typedef] @@ -7318,7 +7360,7 @@ def: "d socio-legally transfers l if l participates in d and d has specified inp property_value: IAO:0000117 "Mathias Brochhausen" xsd:string property_value: IAO:0000231 IAO:0000103 is_functional: true -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true is_asymmetric: true @@ -7357,6 +7399,7 @@ property_value: IAO:0000117 "PERSON: Melanie Courtot" xsd:string property_value: IAO:0000412 http://purl.obolibrary.org/obo/obi.owl domain: OBI:0000011 ! planned process is_a: RO:0000057 ! has_participant +inverse_of: OBI:0000312 ! is_specified_output_of [Typedef] id: OBI:0000312 @@ -7384,6 +7427,8 @@ property_value: IAO:0000117 "Person:Helen Parkinson" xsd:string property_value: IAO:0000119 "Person:Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Person:Helen Parkinson" xsd:string property_value: IAO:0000232 "2009/09/28 Alan Ruttenberg. Fucoidan-use-case" xsd:string +range: OBI:0000245 ! organization +inverse_of: OBI:0001688 ! has organization member [Typedef] id: OBI:0001688 @@ -7393,12 +7438,28 @@ property_value: IAO:0000111 "has organization member" xsd:string property_value: IAO:0000114 IAO:0000123 property_value: IAO:0000116 "See tracker:\nhttps://sourceforge.net/tracker/index.php?func=detail&aid=3512902&group_id=177891&atid=886178" xsd:string property_value: IAO:0000117 "Person: Jie Zheng" xsd:string +domain: OBI:0000245 ! organization + +[Typedef] +id: OBIB:0000732 +name: owns +property_value: IAO:0000117 "Mathias Brochhausen" xsd:string +property_value: IAO:0000600 "This is a primitive relation. This relation is the foundation to the owners right to have the owned entity at his/her full disposal." xsd:string +inverse_of: OBIB:0000735 ! is owned by +is_asymmetric: true + +[Typedef] +id: OBIB:0000735 +name: is owned by +def: "a is owned by b if b has complete power over a. All rights and obligations of ownership are grounded in this (primitive) relation. The claims and obligations of ownership can be partially transferred to a third party by the owner, b." [] +property_value: IAO:0000119 "Reinach, A. Sämtliche Werke. Texkritische Ausgabe, München: Philosophia Verlag, 1989, p.189-204." xsd:string +is_asymmetric: true [Typedef] id: OMIABIS:0000008 name: obsolete owns property_value: IAO:0000117 "Mathias Brochhausen" xsd:string -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true replaced_by: OBIB:0000732 @@ -7406,7 +7467,7 @@ replaced_by: OBIB:0000732 id: OMIABIS:0000009 name: obsolete administrates property_value: IAO:0000117 "Mathias Brochhausen" xsd:string -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true replaced_by: OBIB:0000733 @@ -7428,7 +7489,7 @@ is_obsolete: true id: OMRSE:00000021 name: obsolete is-component-of-aggregate comment: At the instance level, this relation is the named inverse of is-aggregate-of.\n\nAt the type level, however, not so.\n\nWe expect BFO 2.0 to have this relation as well, and we will obsolete this property and declare it equivalent to BFO's version when BFO 2.0 comes out. -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true [Typedef] @@ -7455,14 +7516,14 @@ name: provides service id: OMRSE:00000247 name: is abuse of def: "Relation between an abusive behavior and one upon whom it is inflicted." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Typedef] id: OMRSE:00000248 name: has aggressor def: "Relation between an abusive behavior and one who inflicts it upon someone or something else." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string [Typedef] @@ -7476,8 +7537,8 @@ range: BFO:0000040 ! material entity id: OMRSE:00000263 name: demarcates def: "Relation in which a categorization scheme stands to each category into which it partitions things." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: OMRSE:00000262 ! categorization scheme is_a: IAO:0000136 ! is about @@ -7487,8 +7548,8 @@ inverse_of: OMRSE:00000264 ! demarcated by id: OMRSE:00000264 name: demarcated by def: "Relation in which a category stands to the categorization scheme that demarcates it as a category." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string range: OMRSE:00000262 ! categorization scheme @@ -7496,8 +7557,8 @@ range: OMRSE:00000262 ! categorization scheme id: OMRSE:00000272 name: has primary data subject def: "Relation in which a data item stands to the person it is both about and primarily associated with." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: IAO:0000030 ! information content entity range: NCBITaxon:9606 ! Homo sapiens @@ -7508,8 +7569,8 @@ inverse_of: OMRSE:00000273 ! primary data subject of id: OMRSE:00000273 name: primary data subject of def: "The inverse of has primary data subject." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: NCBITaxon:9606 ! Homo sapiens range: IAO:0000030 ! information content entity @@ -7518,8 +7579,8 @@ range: IAO:0000030 ! information content entity id: OMRSE:00000275 name: has reporter def: "Relation in which a personal data disclosure stands to the person who performs it by disclosing data items about someone." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: OMRSE:00000274 ! personal data disclosure range: NCBITaxon:9606 ! Homo sapiens @@ -7530,8 +7591,8 @@ inverse_of: OMRSE:00000276 ! reporter of id: OMRSE:00000276 name: reporter of def: "The inverse of has reporter." [] -property_value: http://purl.org/dc/elements/1.1/contributor "S. Clint Dowland" xsd:string -property_value: http://purl.org/dc/elements/1.1/contributor "William R. Hogan" xsd:string +property_value: dc:contributor "S. Clint Dowland" xsd:string +property_value: dc:contributor "William R. Hogan" xsd:string property_value: IAO:0000117 "Matthew Diller" xsd:string domain: NCBITaxon:9606 ! Homo sapiens range: OMRSE:00000274 ! personal data disclosure @@ -7563,7 +7624,7 @@ property_value: IAO:0000116 "A bearer can have many dependents, and its dependen property_value: IAO:0000118 "bearer_of" xsd:string property_value: IAO:0000118 "is bearer of" xsd:string property_value: RO:0001900 RO:0001901 -range: BFO:0000020 ! specifically dependent continuant +range: BFO:0000020 ! characteristic is_inverse_functional: true [Typedef] @@ -7584,14 +7645,14 @@ id: RO:0000057 name: has participant name: has_participant def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] -property_value: http://purl.org/dc/elements/1.1/source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" xsd:string -property_value: http://purl.org/dc/terms/source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" xsd:string +property_value: dc:source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" xsd:string property_value: IAO:0000111 "has participant" xsd:string property_value: IAO:0000112 "this blood coagulation has participant this blood clot" xsd:string property_value: IAO:0000112 "this investigation has participant this investigator" xsd:string property_value: IAO:0000112 "this process has participant this input material (or this output material)" xsd:string property_value: IAO:0000116 "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string property_value: IAO:0000118 "has_participant" xsd:string +property_value: terms:source "http://www.obofoundry.org/ro/#OBO_REL:has_participant" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000002 ! continuant holds_over_chain: BFO:0000051 RO:0000057 @@ -7605,7 +7666,7 @@ property_value: IAO:0000112 "A journal article is an information artifact that i property_value: IAO:0000112 "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." xsd:string property_value: IAO:0000412 "http://purl.obolibrary.org/obo/obi.owl" xsd:string domain: BFO:0000031 ! generically dependent continuant -range: BFO:0000020 ! specifically dependent continuant +range: BFO:0000020 ! characteristic inverse_of: RO:0000059 ! concretizes [Typedef] @@ -7616,7 +7677,7 @@ property_value: IAO:0000111 "concretizes" xsd:string property_value: IAO:0000112 "A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant)." xsd:string property_value: IAO:0000112 "An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process)." xsd:string property_value: IAO:0000412 "http://purl.obolibrary.org/obo/obi.owl" xsd:string -domain: BFO:0000020 ! specifically dependent continuant +domain: BFO:0000020 ! characteristic range: BFO:0000031 ! generically dependent continuant [Typedef] @@ -7743,7 +7804,7 @@ inverse_of: RO:0001025 ! located in id: RO:0001025 name: located in def: "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" [] -property_value: http://purl.org/dc/elements/1.1/source "http://www.obofoundry.org/ro/#OBO_REL:located_in" xsd:string +property_value: dc:source "http://www.obofoundry.org/ro/#OBO_REL:located_in" xsd:string property_value: IAO:0000111 "located in" xsd:string property_value: IAO:0000112 "my brain is located in my head" xsd:string property_value: IAO:0000112 "this rat is located in this cage" xsd:string @@ -8046,7 +8107,7 @@ def: "OBSOLETE x actively participates in y if and only if x participates in y a comment: Obsoleted as the inverse property was obsoleted. property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "agent in" xsd:string -is_a: ObsoleteProperty +is_a: oboInOwl:ObsoleteProperty is_obsolete: true replaced_by: RO:0002608 @@ -8073,11 +8134,11 @@ id: RO:0002222 name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco -property_value: http://purl.org/dc/terms/source "https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1" xsd:anyURI property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 https://en.wikipedia.org/wiki/Allen%27s_interval_algebra property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." xsd:string +property_value: terms:source "https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1" xsd:anyURI domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent @@ -8220,9 +8281,9 @@ def: "p is causally upstream of, positive effect q iff p is casually upstream of comment: holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: http://purl.org/dc/terms/creator https://orcid.org/0000-0002-6601-2165 property_value: RO:0004049 RO:0002411 property_value: seeAlso https://wiki.geneontology.org/Causally_upstream_of,_positive_effect +property_value: terms:creator https://orcid.org/0000-0002-6601-2165 is_a: RO:0002411 ! causally upstream of is_a: RO:0004047 ! causally upstream of or within, positive effect @@ -8232,9 +8293,9 @@ name: causally upstream of, negative effect def: "p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: http://purl.org/dc/terms/creator https://orcid.org/0000-0002-6601-2165 property_value: RO:0004050 RO:0002411 property_value: seeAlso https://wiki.geneontology.org/Causally_upstream_of,_negative_effect +property_value: terms:creator https://orcid.org/0000-0002-6601-2165 is_a: RO:0002411 ! causally upstream of is_a: RO:0004046 ! causally upstream of or within, negative effect @@ -8546,12 +8607,12 @@ name: interacts with def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] subset: ro-eco synonym: "in pairwise interaction with" EXACT [] -property_value: closeMatch "http://purl.obolibrary.org/obo/MI_0914" xsd:anyURI property_value: IAO:0000116 "Considering relabeling as 'pairwise interacts with'" xsd:anyURI property_value: IAO:0000116 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." xsd:string property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI +property_value: skos:closeMatch "http://purl.obolibrary.org/obo/MI_0914" xsd:anyURI domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_symmetric: true @@ -8560,11 +8621,11 @@ is_symmetric: true id: RO:0002436 name: molecularly interacts with def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] -property_value: closeMatch "http://purl.obolibrary.org/obo/MI_0915" xsd:anyURI property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "binds" xsd:string property_value: IAO:0000118 "molecularly binds with" xsd:string property_value: seeAlso ECO:0000353 +property_value: skos:closeMatch "http://purl.obolibrary.org/obo/MI_0915" xsd:anyURI is_symmetric: true is_a: RO:0002434 ! interacts with @@ -8705,6 +8766,14 @@ domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant is_a: RO:0002506 ! causal relation between entities +[Typedef] +id: RO:0002577 +name: system +def: "A material entity consisting of multiple components that are causally integrated." [] +property_value: IAO:0000116 "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000119 "http://www.jbiomedsem.com/content/4/1/43" xsd:string + [Typedef] id: RO:0002578 name: directly regulates @@ -8925,14 +8994,14 @@ id: RO:0009501 name: realized in response to def: "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r." [] synonym: "triggered by process" EXACT [https://orcid.org/0000-0002-6601-2165] -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-6996-0040 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6601-2165 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-7073-9172 -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8461-9745 property_value: IAO:0000112 "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions." xsd:string property_value: IAO:0000112 "An inflammatory disease that is realized in response to an inflammatory process occurring in the gut (which is itself the realization of a process realized in response to harmful stimuli in the mucosal lining of th gut)" xsd:string property_value: IAO:0000112 "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph." xsd:string property_value: seeAlso "https://docs.google.com/document/d/1KWhZxVBhIPkV6_daHta0h6UyHbjY2eIrnON1WIRGgdY/edit" xsd:anyURI +property_value: terms:contributor https://orcid.org/0000-0001-6996-0040 +property_value: terms:contributor https://orcid.org/0000-0002-6601-2165 +property_value: terms:contributor https://orcid.org/0000-0002-7073-9172 +property_value: terms:contributor https://orcid.org/0000-0002-8461-9745 domain: BFO:0000017 ! realizable entity range: BFO:0000015 ! process holds_over_chain: BFO:0000054 RO:0002404 @@ -8998,10 +9067,10 @@ name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] property_value: IAO:0000112 "A diagnostic testing device utilizes a specimen." xsd:string -property_value: IAO:0000117 https://orcid.org/0000-0001-9625-1899 -property_value: IAO:0000117 https://orcid.org/0000-0003-2620-0345 property_value: IAO:0000232 "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." xsd:string property_value: IAO:0000232 "See github ticket https://github.com/oborel/obo-relations/issues/497" xsd:string +property_value: terms:contributor https://orcid.org/0000-0001-9625-1899 +property_value: terms:contributor https://orcid.org/0000-0003-2620-0345 holds_over_chain: RO:0002215 RO:0002233 creation_date: 2021-11-08T12:00:00Z @@ -9009,7 +9078,7 @@ creation_date: 2021-11-08T12:00:00Z id: RO:0019000 name: regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 +property_value: terms:contributor https://orcid.org/0000-0002-8688-6599 domain: BFO:0000015 ! process range: PATO:0000001 ! quality holds_over_chain: RO:0002211 RO:0019000 @@ -9019,7 +9088,7 @@ is_a: RO:0002410 ! causally related to id: RO:0019001 name: positively regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 +property_value: terms:contributor https://orcid.org/0000-0002-8688-6599 holds_over_chain: RO:0002213 RO:0019001 is_a: RO:0019000 ! regulates characteristic @@ -9027,7 +9096,7 @@ is_a: RO:0019000 ! regulates characteristic id: RO:0019002 name: negatively regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] -property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 +property_value: terms:contributor https://orcid.org/0000-0002-8688-6599 holds_over_chain: RO:0002212 RO:0019001 holds_over_chain: RO:0002213 RO:0019002 is_a: RO:0019000 ! regulates characteristic diff --git a/omrse.owl b/omrse.owl index 063b236..e99a50e 100644 --- a/omrse.owl +++ b/omrse.owl @@ -17,9 +17,10 @@ xmlns:terms="http://purl.org/dc/terms/" xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#" xmlns:subsets="http://purl.obolibrary.org/obo/ro/subsets#" - xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> + xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#" + xmlns:language-individuals="http://purl.obolibrary.org/obo/omrse/language-individuals/"> - + Barry Smith Chris Stoeckert Daniel Welch @@ -41,7 +42,7 @@ Ontology for Modeling and Representation of Social Entities https://creativecommons.org/licenses/by/4.0/ This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's "meaningful use" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt - 2024-03-22 + 2024-08-09 @@ -676,7 +677,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 abbreviation - + @@ -689,7 +690,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 ambiguous synonym - + @@ -702,7 +703,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 dubious synonym - + @@ -716,7 +717,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 layperson synonym - + @@ -730,7 +731,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 plural form - + @@ -744,7 +745,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 UK spelling synonym - + @@ -757,7 +758,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 misspelling - + @@ -770,7 +771,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-03-03 misnomer - + @@ -784,7 +785,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-07-25 previous name - + @@ -798,7 +799,7 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-07-27 legal name - + @@ -811,8 +812,9 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-09-30 + INN International Nonproprietary Name - + @@ -826,7 +828,21 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] 2023-10-12 latin term - + + + + + + + + + NASA is an word acronym for the US National Aeronautics and Space Administration because the acronym is pronounced. FBI is an initialism (also known as alphabetism) for the US Federal Bureau of Investigation since the letters are pronounced one at a time. JPEG is an acronym for Joint Photographic Experts Group but does not count as a word acronym nor an initialism since it is mixed how it is pronounced. + A synonym type for describing abbreviations that are a part of the full name's words, such as initialisms or alphabetisms. + + + 2023-11-01 + acronym + @@ -991,6 +1007,12 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] + + + + + + @@ -1155,9 +1177,9 @@ EquivalentTo: xsd:integer[> 2151 , <= 2300] - + - + @@ -1545,6 +1567,60 @@ A continuant cannot have an occurrent as part: use 'participates in'. + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + @@ -1951,6 +2027,30 @@ It is important to note that this going out of existence of s is complete and un + + + + + + + Mathias Brochhausen + This is a primitive relation. This relation is the foundation to the owners right to have the owned entity at his/her full disposal. + owns + + + + + + + + + a is owned by b if b has complete power over a. All rights and obligations of ownership are grounded in this (primitive) relation. The claims and obligations of ownership can be partially transferred to a third party by the owner, b. + Reinach, A. Sämtliche Werke. Texkritische Ausgabe, München: Philosophia Verlag, 1989, p.189-204. + is owned by + + + + @@ -1995,6 +2095,7 @@ It is important to note that this going out of existence of s is complete and un + has_specified_output has_specified_output @@ -2031,6 +2132,8 @@ It is important to note that this going out of existence of s is complete and un + + is member of organization Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization. @@ -2049,6 +2152,7 @@ It is important to note that this going out of existence of s is complete and un + has organization member Relating an organization to a legal person or organization. @@ -4171,6 +4275,12 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + @@ -4626,10 +4736,10 @@ For example, A and B may be gene products and binding of B by A positively regul A diagnostic testing device utilizes a specimen. X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. - - A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input. See github ticket https://github.com/oborel/obo-relations/issues/497 + + 2021-11-08T12:00:00Z utilizes device utilizes material @@ -4915,7 +5025,7 @@ For example, A and B may be gene products and binding of B by A positively regul Matthew Diller William R. Hogan A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification. - geographical migration of organism + geographical movement of organism @@ -5643,6 +5753,7 @@ For example, A and B may be gene products and binding of B by A positively regul (forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] (forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] + realizable realizable entity @@ -5781,7 +5892,10 @@ For example, A and B may be gene products and binding of B by A positively regul (iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. + characteristic specifically dependent continuant + https://github.com/OBOFoundry/COB/issues/65 + https://github.com/oborel/obo-relations/pull/284 @@ -6614,11 +6728,14 @@ Note: this definition was taken over from "geopolitical organization". - + + A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. molecular function GO:0003674 Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex. + This is the same as GO molecular function + gene product or complex activity molecular_function @@ -6658,6 +6775,7 @@ Note: this definition was taken over from "geopolitical organization". A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. + A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective. jl 2012-09-19T15:05:24Z Wikipedia:Biological_process @@ -6666,7 +6784,10 @@ Note: this definition was taken over from "geopolitical organization". single organism process single-organism process GO:0008150 + A biological process is an evolved process + Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. + biological process biological_process @@ -13383,7 +13504,7 @@ Note: this definition was taken over from "geopolitical organization". - + @@ -13430,7 +13551,7 @@ Note: this definition was taken over from "geopolitical organization". - + @@ -14266,7 +14387,7 @@ last accessed June 30, 2015 - + @@ -17157,16 +17278,6 @@ Somehow involves skilled nursing encounters - non-binary gender identity datum - A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender. - Paul Fabry - William Hogan - non-binary gender identity information content entity - Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.) - -Examples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) - obsolete non-binary gender identity datum - true @@ -18573,11 +18684,6 @@ It indicates that a person has completed only early childhood education and noth - A material entity consisting of multiple components that are causally integrated. - May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43 - - http://www.jbiomedsem.com/content/4/1/43 - system @@ -18909,204 +19015,5536 @@ It indicates that a person has completed only early childhood education and noth - + - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - + + + - + - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - + + + Аҧсуа бызшәа + Аҧсшәа + ab + abk + abk + Abkhazian + + + + + + + + + بهسا اچيه + ace + ace + Achinese + + + + + + + + + Lwo + ach + ach + Acoli + + + + + + + + + Dangme + ada + ada + Adangme + + + + + + + + + Adygei + Адыгабзэ + Кӏахыбзэ + ady + ady + Adyghe + + + + + + + + + El-Afrihili + afh + afh + Afrihili + + + + + + + + + Afrikaans + af + afr + afr + Afrikaans + + + + + + + + + アイヌ・イタㇰ + ain + ain + Ainu + + + + + + + + + Akan + ak + aka + aka + Akan + + + + + + + + + 𒀝𒅗𒁺𒌑 + akk + akk + Akkadian + + + + + + + + + Shqip + sq + alb + sqi + Albanian + + + + + + + + + Уна́ӈам тунуу́ + Унаӈан умсуу + ale + ale + Aleut + + + + + + + + + Алтай тили + alt + alt + Southern Altai + + + + + + + + + አማርኛ + am + amh + amh + Amharic + + + + + + + + + Anglisc + Englisc + Ænglisc + ang + ang + English, Old (ca.450–1100) + + + + + + + + + anp + anp + Angika + + + + + + + + + العَرَبِيَّة + ar + ara + ara + Arabic + + + + + + + + + Imperial Aramaic (700–300 BCE) + arc + arc + Official Aramaic (700–300 BCE) + + + + + + + + + aragonés + an + arg + arg + Aragonese + + + + + + + + + Հայերեն + Հայերէն + hy + arm + hye + Armenian + + + + + + + + + Mapuche + arn + arn + Mapudungun + + + + + + + + + Hinónoʼeitíít + arp + arp + Arapaho + + + + + + + + + Lokono + arw + arw + Arawak + + + + + + + + + অসমীয়া + as + asm + asm + Assamese + + + + + + + + + Asturianu + Asturleonese + Bable + Leonese + ast + ast + Asturian + + + + + + + + + Авар мацӏ + Магӏарул мацӏ + av + ava + ava + Avaric + + + + + + + + + ae + ave + ave + Avestan + + + + + + + + + अवधी + awa + awa + Awadhi + + + + + + + + + Aymar aru + ay + aym + aym + Aymara + + + + + + + + + Azərbaycan dili + Азәрбајҹан дили + آذربایجان دیلی + az + aze + aze + Azerbaijani + + + + + + + + + Başqort tele + Башҡорт теле + ba + bak + bak + Bashkir + + + + + + + + + بلوچی + bal + bal + Baluchi + + + + + + + + + ߓߊߡߊߣߊߣߞߊߣ + bm + bam + bam + Bambara + + + + + + + + + ᬩᬲᬩᬮᬶ + ᬪᬵᬱᬩᬮᬶ + ban + ban + Balinese + + + + + + + + + euskara + eu + baq + eus + Basque + + + + + + + + + Mbene + Ɓasaá + bas + bas + Basa + + + + + + + + + Bedawiyet + Bidhaawyeet + bej + bej + Beja + + + + + + + + + Беларуская мова + be + bel + bel + Belarusian + + + + + + + + + Chibemba + bem + bem + Bemba + + + + + + + + + বাংলা + bn + ben + ben + Bengali + + + + + + + + + भोजपुरी + bho + bho + Bhojpuri + + + + + + + + + bik + bik + Bikol + + + + + + + + + Edo + Ẹ̀dó + bin + bin + Bini + + + + + + + + + bi + bis + bis + Bislama + + + + + + + + + ᓱᖽᐧᖿ + bla + bla + Siksika + + + + + + + + + བོད་སྐད་ + ལྷ་སའི་སྐད་ + bo + tib + bod + Tibetan + + + + + + + + + bosanski + босански + bs + bos + bos + Bosnian + + + + + + + + + bra + bra + Braj + + + + + + + + + Brezhoneg + br + bre + bre + Breton + + + + + + + + + буряад хэлэн + bua + bua + Buriat + + + + + + + + + ᨅᨔ ᨕᨘᨁᨗ + bug + bug + Buginese + + + + + + + + + български език + bg + bul + bul + Bulgarian + + + + + + + + + မြန်မာစကား + မြန်မာစာ + my + bur + mya + Burmese + + + + + + + + + Bilin + ብሊና + 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Papiamentu + pap + pap + Papiamento + + + + + + + + + a tekoi er a Belau + pau + pau + Palauan + + + + + + + + + peo + peo + Persian, Old (ca. 600–400 B.C.) + + + + + + + + + 𐤃𐤁𐤓𐤉𐤌 𐤊𐤍𐤏𐤍𐤉𐤌 + phn + phn + Phoenician + + + + + + + + + Pāli + pi + pli + pli + Pali + + + + + + + + + Język polski + pl + pol + pol + Polish + + + + + + + + + pon + pon + Pohnpeian + + + + + + + + + português + pt + por + por + Portuguese + + + + + + + + + Old Occitan (to 1500) + pro + pro + Provençal, Old (to 1500) + + + + + + + + + Pashto + پښتو + ps + pus + pus + Pushto + + + + + + + + + Nuna shimi + Runa simi + kichwa simi + qu + que + que + Quechua + + + + + + + + + राजस्थानी + raj + raj + Rajasthani + + + + + + + + + Vananga rapa nui + rap + rap + Rapanui + + + + + + + + + Cook Islands Maori + Māori Kūki 'Āirani + rar + rar + Rarotongan + + + + + + + + + Romauntsch + Romontsch + Rumantsch + Rumàntsch + rm + roh + roh + Romansh + + + + + + + + + romani čhib + rom + rom + Romany + + + + + + + + + Moldavian + Moldovan + limba română + ro + rum + ron + Romanian + + + + + + + + + Ikirundi + rn + run + run + Rundi + + + + + + + + + Arumanian + Macedo-Romanian + armãneashce + armãneashti + rrãmãneshti + rup + rup + Aromanian + + + + + + + + + русский язык + ru + rus + rus + Russian + + + + + + + + + Sandaweeki + sad + sad + Sandawe + + + + + + + + + yângâ tî sängö + sg + sag + sag + Sango + + + + + + + + + Сахалыы + sah + sah + Yakut + + + + + + + + + ארמית + sam + sam + Samaritan Aramaic + + + + + + + + + संस्कृतम् + sa + san + san + Sanskrit + + + + + + + + + sas + sas + Sasak + + + + + + + + + ᱥᱟᱱᱛᱟᱲᱤ + sat + sat + Santali + + + + + + + + + Sicilianu + scn + scn + Sicilian + + + + + + + + + Braid Scots + Lallans + sco + sco + Scots + + + + + + + + + sel + sel + Selkup + + + + + + + + + Goídelc + sga + sga + Irish, Old (to 900) + + + + + + + + + ၵႂၢမ်းတႆးယႂ် + shn + shn + Shan + + + + + + + + + Sidaamu Afoo + sid + sid + Sidamo + + + + + + + + + Sinhalese + සිංහල + si + sin + sin + Sinhala + + + + + + + + + slovenský jazyk + slovenčina + sk + slo + slk + Slovak + + + + + + + + + slovenski jezik + slovenščina + sl + slv + slv + Slovenian + + + + + + + + + Åarjelsaemien gïele + sma + sma + Southern Sami + + + + + + + + + davvisámegiella + se + sme + sme + Northern Sami + + + + + + + + + julevsámegiella + smj + smj + Lule Sami + + + + + + + + + anarâškielâ + smn + smn + Inari Sami + + + + + + + + + Gagana faʻa Sāmoa + sm + smo + smo + Samoan + + + + + + + + + sääʹmǩiõll + sms + sms + Skolt Sami + + + + + + + + + chiShona + sn + sna + sna + Shona + + + + + + + + + سنڌي + सिन्धी + ਸਿੰਧੀ + sd + snd + snd + Sindhi + + + + + + + + + Sooninkanxanne + snk + snk + Soninke + + + + + + + + + sog + sog + Sogdian + + + + + + + + + af Soomaali + so + som + som + Somali + + + + + + + + + Sesotho [southern] + st + sot + sot + Sotho, Southern + + + + + + + + + Castilian + castellano + español + es + spa + spa + Spanish + + + + + + + + + limba sarda + lingua sarda + sardu + sc + srd + srd + Sardinian + + + + + + + + + srn + srn + Sranan Tongo + + + + + + + + + srpski + српски + sr + srp + srp + Serbian + + + + + + + + + Seereer + srr + srr + Serer + + + + + + + + + siSwati + ss + ssw + ssw + Swati + + + + + + + + + Kɪsukuma + suk + suk + Sukuma + + + + + + + + + Basa Sunda + ᮘᮞ ᮞᮥᮔ᮪ᮓ + su + sun + sun + Sundanese + + + + + + + + + Sosoxui + sus + sus + Susu + + + + + + + + + 𒅴𒂠 + sux + sux + Sumerian + + + + + + + + + Kiswahili + sw + swa + swa + Swahili + + + + + + + + + svenska + sv + swe + swe + Swedish + + + + + + + + + syc + syc + Classical Syriac + + + + + + + + + ܠܫܢܐ ܣܘܪܝܝܐ + syr + syr + Syriac + + + + + + + + + Reo Mā'ohi + Reo Tahiti + ty + tah + tah + Tahitian + + + + + + + + + தமிழ் + ta + tam + tam + Tamil + + + + + + + + + tatar tele + татар теле + تاتار + tt + tat + tat + Tatar + + + + + + + + + తెలుగు + te + tel + tel + Telugu + + + + + + + + + KʌThemnɛ + tem + tem + Timne + + + + + + + + + Terêna + ter + ter + Tereno + + + + + + + + + Lia-Tetun + tet + tet + Tetum + + + + + + + + + tojikī + тоҷикӣ + tg + tgk + tgk + Tajik + + + + + + + + + Wikang Tagalog + tl + tgl + tgl + Tagalog + + + + + + + + + ภาษาไทย + th + tha + tha + Thai + + + + + + + + + ትግረ + ትግራይት + ትግሬ + ኻሳ + tig + tig + Tigre + + + + + + + + + ትግርኛ + ti + tir + tir + Tigrinya + + + + + + + + + tiv + tiv + Tiv + + + + + + + + + tkl + tkl + Tokelau + + + + + + + + + tlhIngan-Hol + tlh + tlh + Klingon + + + + + + + + + Lingít + tli + tli + Tlingit + + + + + + + + + tmh + tmh + Tamashek + + + + + + + + + chiTonga + tog + tog + Tonga (Nyasa) + + + + + + + + + lea faka-Tonga + to + ton + ton + Tonga (Tonga Islands) + + + + + + + + + tpi + tpi + Tok Pisin + + + + + + + + + tsi + tsi + Tsimshian + + + + + + + + + Setswana + tn + tsn + tsn + Tswana + + + + + + + + + Xitsonga + ts + tso + tso + Tsonga + + + + + + + + + Türkmençe + türkmen dili + Түркменче + түркмен дили + تورکمن تیلی + تورکمنچه + tk + tuk + tuk + Turkmen + + + + + + + + + chiTumbuka + tum + tum + Tumbuka + + + + + + + + + Türkçe + tr + tur + tur + Turkish + + + + + + + + + Te Gagana Tuuvalu + Te Ggana Tuuvalu + tvl + tvl + Tuvalu + + + + + + + + + tw + twi + twi + Twi + + + + + + + + + тыва дыл + tyv + tyv + Tuvinian + + + + + + + + + удмурт кыл + udm + udm + Udmurt + + + + + + + + + uga + uga + Ugaritic + + + + + + + + + Uyghur + ئۇيغۇر تىلى + ئۇيغۇرچە + ug + uig + uig + Uighur + + + + + + + + + українська мова + uk + ukr + ukr + Ukrainian + + + + + + + + + Úmbúndú + umb + umb + Umbundu + + + + + + + + + اُردُو + ur + urd + urd + Urdu + + + + + + + + + Oʻzbekcha + oʻzbek tili + ўзбек тили + ўзбекча + ئوبېک تیلی + ئوزبېچه + uz + uzb + uzb + Uzbek + + + + + + + + + ꕙꔤ + vai + vai + Vai + + + + + + + + + Tshivenḓa + ve + ven + ven + Venda + + + + + + + + + Tiếng Việt + vi + vie + vie + Vietnamese + + + + + + + + + vo + vol + vol + Volapük + + + + + + + + + vađđa ceeli + vot + vot + Votic + + + + + + + + + Walamo + Wolaytta + wal + wal + Wolaitta + + + + + + + + + Binisayâ nga Samar-Leyte + Binisayâ nga Winaray + Lineyte-Samarnon + Samareño + Winaray + “Binisayâ nga Waray” + war + war + Waray + + + + + + + + + wá:šiw ʔítlu + was + was + Washo + + + + + + + + + Walon + wa + wln + wln + Walloon + + + + + + + + + wo + wol + wol + Wolof + + + + + + + + + Oirat + Xaľmg keln + Хальмг келн + xal + xal + Kalmyk + + + + + + + + + isiXhosa + xh + xho + xho + Xhosa + + + + + + + + + yao + yao + Yao + + + + + + + + + yap + yap + Yapese + + + + + + + + + אידיש + ייִדיש + יידיש + yi + yid + yid + Yiddish + + + + + + + + + èdè Yorùbá + yo + yor + yor + Yoruba + + + + + + + + + Diidxazá + zap + zap + Zapotec + + + + + + + + + Bliss + Blissymbolics + zbl + zbl + Blissymbols + + + + + + + + + Tuḍḍungiyya + zen + zen + Zenaga + + + + + + + + + ⵜⴰⵎⴰⵣⵉⵖⵜ ⵜⴰⵏⴰⵡⴰⵢⵜ + zgh + zgh + Standard Moroccan Tamazight + + + + + + + + + Chuang + Vahcuengh + 話僮 + za + zha + zha + Zhuang + + + + + + + + + isiZulu + zu + zul + zul + Zulu + + + + + + + + + Shiwi'ma + zun + zun + Zuni + + + + + + + + + Dimili + Dimli + Kirdki + Kirmanjki + Zazaki + zza + zza + Zaza + + + + + + + + non-binary gender identity datum + A gender identity datum resulting from a gender identification process in which ‘non binary’ is selected based on the participant's subjective sense of gender. + Paul Fabry + William Hogan + Afaraf + Qafar af + Qafaraf + ’Afar Af + non-binary gender identity information content entity + aa + aar + aar + Alternatively: A gender identity datum stating that a person's subjective sense of gender is non-binary.) + +Examples of usage: ‘Non-binary’, ‘Trigender’, ‘Agender’, ‘Genderfluid’, ‘2’ (intended to refer to a non-binary gender role) + Afar + obsolete non-binary gender identity datum + true + + + A material entity consisting of multiple components that are causally integrated. + May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43 + + http://www.jbiomedsem.com/content/4/1/43 + system + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + @@ -19114,8 +24552,8 @@ It indicates that a person has completed only early childhood education and noth - - + + @@ -19377,7 +24815,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -19387,8 +24825,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19398,8 +24836,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19416,8 +24854,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19436,7 +24874,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -19446,8 +24884,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19457,8 +24895,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19475,8 +24913,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19492,8 +24930,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19503,7 +24941,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -19513,8 +24951,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19524,8 +24962,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19544,8 +24982,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19563,8 +25001,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19574,8 +25012,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19585,8 +25023,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19603,8 +25041,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19621,8 +25059,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19632,8 +25070,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19643,8 +25081,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19661,8 +25099,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19679,8 +25117,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19690,8 +25128,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19701,8 +25139,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19719,8 +25157,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19736,9 +25174,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19747,9 +25185,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19764,8 +25202,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19781,9 +25219,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19792,9 +25230,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19809,8 +25247,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19826,9 +25264,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19837,9 +25275,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19854,8 +25292,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19871,9 +25309,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19882,9 +25320,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19899,8 +25337,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19916,9 +25354,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19927,9 +25365,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19944,8 +25382,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -19961,9 +25399,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19972,9 +25410,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -19989,7 +25427,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -19999,7 +25437,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20017,9 +25455,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20028,9 +25466,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20045,7 +25483,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20055,7 +25493,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20072,7 +25510,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20083,7 +25521,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20116,9 +25554,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20127,9 +25565,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20144,8 +25582,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -20160,9 +25598,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20171,9 +25609,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20187,9 +25625,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20204,7 +25642,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20215,7 +25653,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20231,7 +25669,7 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + @@ -20248,9 +25686,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20259,9 +25697,9 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - - + + + @@ -20293,8 +25731,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -20304,8 +25742,8 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - - + + @@ -20332,5 +25770,5 @@ e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase - + diff --git a/src/ontology/imports/apollo_sv_import.owl b/src/ontology/imports/apollo_sv_import.owl index e76831f..b95ee04 100644 --- a/src/ontology/imports/apollo_sv_import.owl +++ b/src/ontology/imports/apollo_sv_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2023-11-01") + +Annotation( ) +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) @@ -39,13 +39,13 @@ AnnotationAssertion( "A measurement datum that is the output of counting."@en) AnnotationAssertion(rdfs:label "count"@en) -# Class: (geographical migration of organism) +# Class: (geographical movement of organism) AnnotationAssertion( "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification."@en) AnnotationAssertion( "Matthew Diller") AnnotationAssertion( "William R. Hogan") AnnotationAssertion( "A behavior of one or more organisms that is characterized by the displacement from one geographic region to some target geographic region, and is the realization of either a biological function or (a concretization of) an objective specification."@en) -AnnotationAssertion(rdfs:label "geographical migration of organism"@en) +AnnotationAssertion(rdfs:label "geographical movement of organism"@en) SubClassOf( ) # Class: (human travel) diff --git a/src/ontology/imports/bfo_import.owl b/src/ontology/imports/bfo_import.owl index f905e2f..4d53a4a 100644 --- a/src/ontology/imports/bfo_import.owl +++ b/src/ontology/imports/bfo_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) -Annotation(owl:versionInfo "2023-11-01") +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/d-acts_import.owl b/src/ontology/imports/d-acts_import.owl index ae4791a..7e9c712 100644 --- a/src/ontology/imports/d-acts_import.owl +++ b/src/ontology/imports/d-acts_import.owl @@ -7,8 +7,8 @@ Prefix(rdfs:=) Ontology( - -Annotation(owl:versionInfo "2024-01-08") + +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/geo_import.owl b/src/ontology/imports/geo_import.owl index a393dc4..88bb983 100644 --- a/src/ontology/imports/geo_import.owl +++ b/src/ontology/imports/geo_import.owl @@ -7,8 +7,8 @@ Prefix(rdfs:=) Ontology( - -Annotation(owl:versionInfo "2023-11-01") + +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/go_import.owl b/src/ontology/imports/go_import.owl index afbf907..243b93b 100644 --- a/src/ontology/imports/go_import.owl +++ b/src/ontology/imports/go_import.owl @@ -7,11 +7,10 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2023-11-01") + +Annotation( ) +Annotation(owl:versionInfo "2024-08-09") -Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(AnnotationProperty()) @@ -29,12 +28,6 @@ Declaration(AnnotationProperty( (molecular_function) - -AnnotationAssertion(Annotation( "GOC:pdt") "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.") -AnnotationAssertion(rdfs:comment "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.") -AnnotationAssertion(rdfs:label "molecular_function") - # Class: (behavior) AnnotationAssertion(Annotation( "GOC:ems") Annotation( "GOC:jl") Annotation( "ISBN:0395448956") Annotation( "PMID:20160973") "The internally coordinated responses (actions or inactions) of animals (individuals or groups) to internal or external stimuli, via a mechanism that involves nervous system activity.") @@ -48,7 +41,7 @@ SubClassOf( "GOC:pdt") "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.") AnnotationAssertion( "Wikipedia:Biological_process") -AnnotationAssertion(rdfs:comment "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.") +AnnotationAssertion(rdfs:comment "Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.") AnnotationAssertion(rdfs:label "biological_process") diff --git a/src/ontology/imports/mf_import.owl b/src/ontology/imports/mf_import.owl index f276236..f53fc91 100644 --- a/src/ontology/imports/mf_import.owl +++ b/src/ontology/imports/mf_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) -Annotation(owl:versionInfo "2023-11-01") +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/oae_import.owl b/src/ontology/imports/oae_import.owl index 1397309..a3c05cb 100644 --- a/src/ontology/imports/oae_import.owl +++ b/src/ontology/imports/oae_import.owl @@ -7,8 +7,8 @@ Prefix(rdfs:=) Ontology( - -Annotation(owl:versionInfo "2023-11-01") + +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/obi_import.owl b/src/ontology/imports/obi_import.owl index 557e798..e3829c5 100644 --- a/src/ontology/imports/obi_import.owl +++ b/src/ontology/imports/obi_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2023-11-01") + +Annotation( ) +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) @@ -35,7 +35,6 @@ Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -54,7 +53,6 @@ Declaration(Datatype(xsd:date)) # Object Property: (has_specified_output) -AnnotationAssertion( "has_specified_output"@en) AnnotationAssertion( "has_specified_output") AnnotationAssertion( ) AnnotationAssertion( "The inverse property of is_specified_output_of"@en) @@ -62,22 +60,21 @@ AnnotationAssertion( "PERSON: Bjoern Peters") AnnotationAssertion( "PERSON: Larry Hunter") AnnotationAssertion( "PERSON: Melanie Courtot") -AnnotationAssertion( ) AnnotationAssertion(rdfs:label "has_specified_output"@en) -EquivalentObjectProperties( ObjectInverseOf()) SubObjectPropertyOf( ) +InverseObjectProperties( ) +ObjectPropertyDomain( ) # Object Property: (is_specified_output_of) -AnnotationAssertion( "is_specified_output_of"@en) AnnotationAssertion( "is_specified_output_of") AnnotationAssertion( ) AnnotationAssertion( "A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of."@en) AnnotationAssertion( "Alan Ruttenberg"@en) AnnotationAssertion( "PERSON:Bjoern Peters") -AnnotationAssertion( ) AnnotationAssertion(rdfs:label "is_specified_output_of"@en) SubObjectPropertyOf( ) +ObjectPropertyRange( ) # Object Property: (is member of organization) @@ -92,6 +89,8 @@ AnnotationAssertion( "Person:Helen Parkinson") AnnotationAssertion( "2009/09/28 Alan Ruttenberg. Fucoidan-use-case") AnnotationAssertion(rdfs:label "is member of organization") +InverseObjectProperties( ) +ObjectPropertyRange( ) # Object Property: (has organization member) @@ -102,6 +101,7 @@ AnnotationAssertion( "Person: Jie Zheng") AnnotationAssertion(rdfs:label "has organization member"@en) +ObjectPropertyDomain( ) @@ -115,7 +115,6 @@ DisjointClasses( (planned process) -AnnotationAssertion( "planned process"@en) AnnotationAssertion( "planned process") AnnotationAssertion( "Injecting mice with a vaccine in order to test its efficacy") AnnotationAssertion( ) @@ -127,7 +126,6 @@ AnnotationAssertion( "branch derived") AnnotationAssertion( "This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call)"@en) AnnotationAssertion( "6/11/9: Edited at workshop. Used to include: is initiated by an agent") -AnnotationAssertion( ) AnnotationAssertion(rdfs:label "planned process"@en) SubClassOf( ) @@ -207,7 +205,6 @@ AnnotationAssertion( "data analysis"@en) AnnotationAssertion( "data processing"@en) AnnotationAssertion( "Branch editors"@en) -AnnotationAssertion( ) AnnotationAssertion(rdfs:label "data transformation"@en) SubClassOf( ) diff --git a/src/ontology/imports/obib_import.owl b/src/ontology/imports/obib_import.owl index 28d75bc..9f611b5 100644 --- a/src/ontology/imports/obib_import.owl +++ b/src/ontology/imports/obib_import.owl @@ -7,10 +7,10 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) Annotation( "MIABIS_v2_accepted and UPenn Biobank ontology"@en) -Annotation(owl:versionInfo "2024-05-08") +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) @@ -80,6 +80,8 @@ AnnotationAssertion( "part_of"@en) AnnotationAssertion(rdfs:label "part of"@en) +InverseObjectProperties( ) +TransitiveObjectProperty() # Object Property: (has part) @@ -95,6 +97,7 @@ AnnotationAssertion( "has_part"@en) AnnotationAssertion(rdfs:label "has part"@en) +TransitiveObjectProperty() # Object Property: (realized in) @@ -107,6 +110,8 @@ AnnotationAssertion( "[copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])"@en) AnnotationAssertion(rdfs:comment "Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process") AnnotationAssertion(rdfs:label "realized in"@en) +InverseObjectProperties( ) +ObjectPropertyRange( ) # Object Property: (realizes) @@ -117,6 +122,7 @@ AnnotationAssertion( "to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])"@en) AnnotationAssertion(rdfs:comment "Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process") AnnotationAssertion(rdfs:label "realizes"@en) +ObjectPropertyDomain( ) # Object Property: (occurs in) @@ -127,6 +133,7 @@ AnnotationAssertion( "unfolds_in"@en) AnnotationAssertion(rdfs:comment "Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant") AnnotationAssertion(rdfs:label "occurs in"@en) +InverseObjectProperties( ) # Object Property: (contains process) @@ -141,12 +148,15 @@ AnnotationAssertion( "This is a primitive relation. This relation is the foundation to the owners right to have the owned entity at his/her full disposal."@en) AnnotationAssertion(rdfs:label "owns"@en) SubObjectPropertyOf( owl:topObjectProperty) +InverseObjectProperties( ) +AsymmetricObjectProperty() # Object Property: (is owned by) AnnotationAssertion( "a is owned by b if b has complete power over a. All rights and obligations of ownership are grounded in this (primitive) relation. The claims and obligations of ownership can be partially transferred to a third party by the owner, b."@en) AnnotationAssertion( "Reinach, A. Sämtliche Werke. Texkritische Ausgabe, München: Philosophia Verlag, 1989, p.189-204.") AnnotationAssertion(rdfs:label "is owned by"@en) +AsymmetricObjectProperty() # Object Property: (obsolete owns) diff --git a/src/ontology/imports/ogms_import.owl b/src/ontology/imports/ogms_import.owl index e034b9f..3dad0c2 100644 --- a/src/ontology/imports/ogms_import.owl +++ b/src/ontology/imports/ogms_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) -Annotation(owl:versionInfo "2023-11-01") +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/omo_import.owl b/src/ontology/imports/omo_import.owl index 73199fe..c06335e 100644 --- a/src/ontology/imports/omo_import.owl +++ b/src/ontology/imports/omo_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2023-11-01") + +Annotation( ) +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) @@ -107,6 +107,7 @@ Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) +Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -125,7 +126,7 @@ Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) +Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -514,7 +515,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-03-03"^^xsd:date) AnnotationAssertion(rdfs:label "abbreviation") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (ambiguous synonym) @@ -523,7 +524,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-03-03"^^xsd:date) AnnotationAssertion(rdfs:label "ambiguous synonym") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (dubious synonym) @@ -532,7 +533,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-03-03"^^xsd:date) AnnotationAssertion(rdfs:label "dubious synonym") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (layperson synonym) @@ -542,7 +543,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-03-03"^^xsd:date) AnnotationAssertion(rdfs:label "layperson synonym") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (plural form) @@ -552,7 +553,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-03-03"^^xsd:date) AnnotationAssertion(rdfs:label "plural form") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (UK spelling synonym) @@ -562,7 +563,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-03-03"^^xsd:date) AnnotationAssertion(rdfs:label "UK spelling synonym") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (misspelling) @@ -571,7 +572,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-03-03"^^xsd:date) AnnotationAssertion(rdfs:label "misspelling") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (misnomer) @@ -580,7 +581,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-03-03"^^xsd:date) AnnotationAssertion(rdfs:label "misnomer") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (previous name) @@ -590,7 +591,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-07-25"^^xsd:date) AnnotationAssertion(rdfs:label "previous name") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (legal name) @@ -600,7 +601,7 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-07-27"^^xsd:date) AnnotationAssertion(rdfs:label "legal name") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (International Nonproprietary Name) @@ -609,8 +610,9 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "2023-09-30"^^xsd:date) +AnnotationAssertion( "INN") AnnotationAssertion(rdfs:label "International Nonproprietary Name") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) # Annotation Property: (latin term) @@ -620,7 +622,17 @@ AnnotationAssertion( ) AnnotationAssertion( "2023-10-12"^^xsd:date) AnnotationAssertion(rdfs:label "latin term") -SubAnnotationPropertyOf( ) +SubAnnotationPropertyOf( ) + +# Annotation Property: (acronym) + +AnnotationAssertion( "NASA is an word acronym for the US National Aeronautics and Space Administration because the acronym is pronounced. FBI is an initialism (also known as alphabetism) for the US Federal Bureau of Investigation since the letters are pronounced one at a time. JPEG is an acronym for Joint Photographic Experts Group but does not count as a word acronym nor an initialism since it is mixed how it is pronounced.") +AnnotationAssertion( "A synonym type for describing abbreviations that are a part of the full name's words, such as initialisms or alphabetisms.") +AnnotationAssertion( ) +AnnotationAssertion( ) +AnnotationAssertion( "2023-11-01"^^xsd:date) +AnnotationAssertion(rdfs:label "acronym") +SubAnnotationPropertyOf( ) # Annotation Property: (has broad synonym) diff --git a/src/ontology/imports/oostt_import.owl b/src/ontology/imports/oostt_import.owl index 8680ac7..19bb3fe 100644 --- a/src/ontology/imports/oostt_import.owl +++ b/src/ontology/imports/oostt_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2023-11-01") + +Annotation( ) +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/pco_import.owl b/src/ontology/imports/pco_import.owl index cc1acdb..dad5e72 100644 --- a/src/ontology/imports/pco_import.owl +++ b/src/ontology/imports/pco_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) -Annotation(owl:versionInfo "2023-11-01") +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(AnnotationProperty()) diff --git a/src/ontology/imports/pno_import.owl b/src/ontology/imports/pno_import.owl index 674ab82..b6c8a1e 100644 --- a/src/ontology/imports/pno_import.owl +++ b/src/ontology/imports/pno_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - + Annotation( ) -Annotation(owl:versionInfo "2023-11-01") +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) diff --git a/src/ontology/imports/ro_import.owl b/src/ontology/imports/ro_import.owl index d53eab9..aad145b 100644 --- a/src/ontology/imports/ro_import.owl +++ b/src/ontology/imports/ro_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2023-11-01") + +Annotation( ) +Annotation(owl:versionInfo "2024-08-09") Declaration(Class()) Declaration(Class()) @@ -28,6 +28,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -203,9 +204,9 @@ Declaration(AnnotationProperty() Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) +Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -1858,10 +1859,10 @@ SubObjectPropertyOf( "A diagnostic testing device utilizes a specimen.") AnnotationAssertion( "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y.") -AnnotationAssertion( ) -AnnotationAssertion( ) AnnotationAssertion( "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input.") AnnotationAssertion( "See github ticket https://github.com/oborel/obo-relations/issues/497") +AnnotationAssertion( ) +AnnotationAssertion( ) AnnotationAssertion( "2021-11-08T12:00:00Z"^^xsd:dateTime) AnnotationAssertion( "utilizes") AnnotationAssertion(rdfs:label "device utilizes material"@en) @@ -1936,6 +1937,7 @@ DisjointClasses( (realizable entity) AnnotationAssertion( "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances."@en) +AnnotationAssertion(rdfs:label "realizable"@en) AnnotationAssertion(rdfs:label "realizable entity"@en) SubClassOf( ) SubClassOf( ObjectAllValuesFrom( )) @@ -1947,11 +1949,14 @@ AnnotationAssertion(rdfs:label "qua SubClassOf( ) SubClassOf( ObjectAllValuesFrom( )) -# Class: (specifically dependent continuant) +# Class: (characteristic) AnnotationAssertion( "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])"@en) AnnotationAssertion(rdfs:comment "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same."@en) +AnnotationAssertion(rdfs:label "characteristic"@en) AnnotationAssertion(rdfs:label "specifically dependent continuant"@en) +AnnotationAssertion(rdfs:seeAlso "https://github.com/OBOFoundry/COB/issues/65") +AnnotationAssertion(rdfs:seeAlso "https://github.com/oborel/obo-relations/pull/284") SubClassOf( ) SubClassOf( ObjectAllValuesFrom( )) DisjointClasses( ) @@ -1987,11 +1992,16 @@ AnnotationAssertion(Annotation( "molecular function") AnnotationAssertion( "GO:0003674") AnnotationAssertion(rdfs:comment "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.") +AnnotationAssertion(rdfs:comment "This is the same as GO molecular function") +AnnotationAssertion(rdfs:label "gene product or complex activity"@en) AnnotationAssertion(rdfs:label "molecular_function") +SubClassOf( ) +DisjointClasses( ) # Class: (biological_process) AnnotationAssertion(Annotation( "GOC:pdt") "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.") +AnnotationAssertion( "A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective.") AnnotationAssertion( "jl") AnnotationAssertion( "2012-09-19T15:05:24Z") AnnotationAssertion( "Wikipedia:Biological_process") @@ -2000,8 +2010,12 @@ AnnotationAssertion( "single organism process") AnnotationAssertion( "single-organism process") AnnotationAssertion( "GO:0008150") +AnnotationAssertion(rdfs:comment "A biological process is an evolved process") AnnotationAssertion(rdfs:comment "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.") +AnnotationAssertion(rdfs:label "biological process"@en) AnnotationAssertion(rdfs:label "biological_process") +SubClassOf( ) +DisjointClasses( ) # Class: (kinase activity) @@ -2033,6 +2047,21 @@ AnnotationAssertion( "curation status specification"@en) EquivalentClasses( ObjectOneOf( )) +# Class: (planned process) + +AnnotationAssertion( "planned process"@en) +AnnotationAssertion( "planned process") +AnnotationAssertion( "Injecting mice with a vaccine in order to test its efficacy") +AnnotationAssertion( ) +AnnotationAssertion( "A process that realizes a plan which is the concretization of a plan specification."@en) +AnnotationAssertion( "'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)") +AnnotationAssertion( "We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some +objectives is a planned process.") +AnnotationAssertion( "Bjoern Peters") +AnnotationAssertion( "branch derived") +AnnotationAssertion(rdfs:label "planned process"@en) +SubClassOf( ) + # Class: (organism) AnnotationAssertion( "organism"@en) @@ -2205,30 +2234,30 @@ SubObjectPropertyOf(ObjectPropertyChain( ) ) SubObjectPropertyOf(ObjectPropertyChain( ) ) SubObjectPropertyOf(ObjectPropertyChain(ObjectInverseOf() ) ) -DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ClassAtom( Variable()) ClassAtom( Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ClassAtom( Variable()) ClassAtom( Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) DLSafeRule(Body(ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) DLSafeRule(Body(ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) DLSafeRule(Body(ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) DLSafeRule(Body(ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) DLSafeRule(Annotation( "true"^^xsd:boolean) Annotation(rdfs:comment "MF(X)-directly_regulates->MF(Y)-enabled_by->GP(Z) => MF(Y)-has_input->GP(Y) e.g. if 'protein kinase activity'(X) directly_regulates 'protein binding activity (Y)and this is enabled by GP(Z) then X has_input Z") Annotation(rdfs:label "infer input from direct reg") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()) ClassAtom( Variable()) ClassAtom( Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) DLSafeRule(Annotation(rdfs:comment "GP(X)-enables->MF(Y)-has_part->MF(Z) => GP(X) enables MF(Z), -e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase coupled transporter activity' has_part 'ATPase activity' then GP(X) enables 'ATPase activity'") Annotation(rdfs:label "enabling an MF enables its parts") Body(ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation( "true"^^xsd:boolean) Annotation(rdfs:comment "GP(X)-enables->MF(Y)-part_of->BP(Z) => GP(X) involved_in BP(Z) e.g. if X enables 'protein kinase activity' and Y 'part of' 'signal tranduction' then X involved in 'signal transduction'") Annotation(rdfs:label "involved in BP") Body(ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:comment "If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this.") Annotation(rdfs:label "inferring direct reg edge from input to regulatory subfunction") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:label "inferring direct neg reg edge from input to regulatory subfunction") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:label "inferring direct positive reg edge from input to regulatory subfunction") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:label "effector input is compound function input") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:label "Input of effector is input of its parent MF") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:comment "if effector directly regulates X, its parent MF directly regulates X") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:comment "if effector directly positively regulates X, its parent MF directly positively regulates X") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:label "if effector directly negatively regulates X, its parent MF directly negatively regulates X") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Annotation(rdfs:label "'causally downstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties).") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ClassAtom(owl:Nothing Variable()) ClassAtom(owl:Nothing Variable()))) -DLSafeRule(Annotation(rdfs:label "'causally upstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties).") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ClassAtom(owl:Nothing Variable()) ClassAtom(owl:Nothing Variable()))) -DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) -DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +e.g. if GP X enables ATPase coupled transporter activity' and 'ATPase coupled transporter activity' has_part 'ATPase activity' then GP(X) enables 'ATPase activity'") Annotation(rdfs:label "enabling an MF enables its parts") Body(ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation( "true"^^xsd:boolean) Annotation(rdfs:comment "GP(X)-enables->MF(Y)-part_of->BP(Z) => GP(X) involved_in BP(Z) e.g. if X enables 'protein kinase activity' and Y 'part of' 'signal tranduction' then X involved in 'signal transduction'") Annotation(rdfs:label "involved in BP") Body(ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ClassAtom( Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:comment "If a molecular function (X) has a regulatory subfunction, then any gene product which is an input to that subfunction has an activity that directly_regulates X. Note: this is intended for cases where the regaultory subfunction is protein binding, so it could be tightened with an additional clause to specify this.") Annotation(rdfs:label "inferring direct reg edge from input to regulatory subfunction") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:label "inferring direct neg reg edge from input to regulatory subfunction") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:label "inferring direct positive reg edge from input to regulatory subfunction") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:label "effector input is compound function input") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:label "Input of effector is input of its parent MF") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:comment "if effector directly regulates X, its parent MF directly regulates X") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:comment "if effector directly positively regulates X, its parent MF directly positively regulates X") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:label "if effector directly negatively regulates X, its parent MF directly negatively regulates X") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Annotation(rdfs:label "'causally downstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties).") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ClassAtom(owl:Nothing Variable()) ClassAtom(owl:Nothing Variable()))) +DLSafeRule(Annotation(rdfs:label "'causally upstream of' and 'overlaps' should be disjoint properties (a SWRL rule is required because these are non-simple properties).") Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ClassAtom(owl:Nothing Variable()) ClassAtom(owl:Nothing Variable()))) +DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) +DLSafeRule(Body(ObjectPropertyAtom( Variable() Variable()) ObjectPropertyAtom( Variable() Variable()))Head(ObjectPropertyAtom( Variable() Variable()))) ) \ No newline at end of file diff --git a/src/ontology/omrse-edit.owl b/src/ontology/omrse-edit.owl index 7b0f002..3e63170 100644 --- a/src/ontology/omrse-edit.owl +++ b/src/ontology/omrse-edit.owl @@ -651,10 +651,6 @@ DataPropertyRange(obo:OMRSE_00000137 xsd:string) # Classes ############################ -# Class: obo:GO_0003674 (molecular_function) - -SubClassOf(obo:GO_0003674 obo:BFO_0000034) - # Class: obo:GO_0008150 (biological_process) SubClassOf(obo:GO_0008150 obo:BFO_0000015)