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Merge pull request #783 from obophenotype/insane_GCI
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Fixes #782 - forcing merge as killing this axiom is urgent.
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@dosumis
dosumis authored Oct 20, 2020
2 parents 410f8d5 + 949fb88 commit 8dafaa7
Showing 1 changed file with 12 additions and 13 deletions.
25 changes: 12 additions & 13 deletions src/ontology/cl-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -3682,15 +3682,15 @@ SubClassOf(Annotation(oboInOwl:is_inferred "true"^^xsd:string) obo:CL_0000096 ob

# Class: obo:CL_0000097 (mast cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add"^^xsd:string) Annotation(oboInOwl:hasDbXref "GOC:dsd"^^xsd:string) Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) Annotation(oboInOwl:hasDbXref "MESH:A11.329.427"^^xsd:string) Annotation(oboInOwl:hasDbXref "MESH:D008407"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMCID:PMC1312421"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMCID:PMC2855166"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:15153310"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:16455980"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:19671378"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:212366338"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:9354811"^^xsd:string) obo:IAO_0000115 obo:CL_0000097 "A cell that is found in almost all tissues containing numerous basophilic granules and capable of releasing large amounts of histamine and heparin upon activation. Progenitors leave bone marrow and mature in connective and mucosal tissue. Mature mast cells are found in all tissues, except the bloodstream. Their phenotype is CD117-high, CD123-negative, CD193-positive, CD200R3-positive, and FceRI-high. Stem-cell factor (KIT-ligand; SCF) is the main controlling signal of their survival and development."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:add"^^xsd:string) Annotation(oboInOwl:hasDbXref "GOC:dsd"^^xsd:string) Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") Annotation(oboInOwl:hasDbXref "MESH:A11.329.427"^^xsd:string) Annotation(oboInOwl:hasDbXref "MESH:D008407"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMCID:PMC1312421"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMCID:PMC2855166"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:15153310"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:16455980"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:19671378"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:212366338"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:9354811"^^xsd:string) obo:IAO_0000115 obo:CL_0000097 "A cell that is found in almost all tissues containing numerous basophilic granules and capable of releasing large amounts of histamine and heparin upon activation. Progenitors leave bone marrow and mature in connective and mucosal tissue. Mature mast cells are found in all tissues, except the bloodstream. Their phenotype is CD117-high, CD123-negative, CD193-positive, CD200R3-positive, and FceRI-high. Stem-cell factor (KIT-ligand; SCF) is the main controlling signal of their survival and development."^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000097 "BTO:0000830"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000097 "CALOHA:TS-0603"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000097 "FMA:66784"^^xsd:string)
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000097 "histaminocyte"^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ISBN:0721601464"^^xsd:string) oboInOwl:hasExactSynonym obo:CL_0000097 "labrocyte"^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ISBN:0721601464"^^xsd:string) oboInOwl:hasExactSynonym obo:CL_0000097 "mastocyte"^^xsd:string)
AnnotationAssertion(oboInOwl:hasOBONamespace obo:CL_0000097 "cell"^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) oboInOwl:hasRelatedSynonym obo:CL_0000097 "tissue basophil"^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ISBN:068340007X") oboInOwl:hasRelatedSynonym obo:CL_0000097 "tissue basophil"^^xsd:string)
AnnotationAssertion(rdfs:comment obo:CL_0000097 "Mast cells are generally integrin beta-7-negative and positive for TLR2, TLR3, TLR4, TLR5, TLR7, TLR9, C3aR, C5aR, CR3, CR4, VEGF, FGF2, and renin. They can express MHC Class I and II on their surface. Activated murine mast cells (IgE+Antigen) were capable of expressing the following co-stimulatory molecules: CD95 (Fas), CD120b, CD137 (4-1BB), CD153 (CD30L), CD154 (CD40L), GITR, ICOSL, OX40L, PD-L1, and PD-L2. Note that there was some mouse strain variation. Mast cells have also been demonstrated to produce bFGF, CCL2, CCL4, CCL5, CCL11, CCL20, CXCL2, CXCL8, CXCL10, GM-CSF, IFN-gamma, IL-1, IL-2, IL-3, IL-8, IL-10, IL-11, IL-12, IL-13, IL-16, IL-25, IL-18, MIP-1, prostaglandin D2, SCF, TGF-beta, TNF-alpha, TSLP, VEGF, and XCL1. They express the transcription factors Transcription factors AP-1, GATA1, MITF, Notch2, PIAS3, PU.1, and STAT5."^^xsd:string)
AnnotationAssertion(rdfs:label obo:CL_0000097 "mast cell"^^xsd:string)
EquivalentClasses(obo:CL_0000097 ObjectIntersectionOf(obo:CL_0000766 ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0030141) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001255) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000006169) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0002349) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0002539) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0002660) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0002690) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0002830) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0030210) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/cl#has_high_plasma_membrane_amount> obo:PR_000002065) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/cl#has_high_plasma_membrane_amount> obo:PR_000007431) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part> obo:PR_000001865)))
Expand Down Expand Up @@ -4042,7 +4042,7 @@ SubClassOf(obo:CL_0000132 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000008))

# Class: obo:CL_0000133 (neurectodermal cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) obo:IAO_0000115 obo:CL_0000133 "Ectoderm destined to be nervous tissue."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") obo:IAO_0000115 obo:CL_0000133 "Ectoderm destined to be nervous tissue."^^xsd:string)
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000133 "neurectoderm cell"^^xsd:string)
AnnotationAssertion(oboInOwl:hasOBONamespace obo:CL_0000133 "cell"^^xsd:string)
AnnotationAssertion(rdfs:label obo:CL_0000133 "neurectodermal cell"^^xsd:string)
Expand Down Expand Up @@ -6833,7 +6833,7 @@ SubClassOf(obo:CL_0000458 obo:CL_0000457)

# Class: obo:CL_0000459 (noradrenergic cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) obo:IAO_0000115 obo:CL_0000459 "A cell capable of producting norepiniphrine. Norepiniphrine is a catecholamine with multiple roles including as a hormone and a neurotransmitter. In addition, epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") obo:IAO_0000115 obo:CL_0000459 "A cell capable of producting norepiniphrine. Norepiniphrine is a catecholamine with multiple roles including as a hormone and a neurotransmitter. In addition, epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme."^^xsd:string)
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000459 "noradrenaline secreting cell"^^xsd:string)
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000459 "norepinephrin secreting cell")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_0000459 "norepinephrine secreting cell")
Expand Down Expand Up @@ -14463,7 +14463,7 @@ SubClassOf(Annotation(oboInOwl:is_inferred "true"^^xsd:string) obo:CL_0002082 ob

# Class: obo:CL_0002083 (type I cell of adrenal medulla)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) obo:IAO_0000115 obo:CL_0002083 "A chromaffin cell of the adrenal medulla that produces norepinephrine."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") obo:IAO_0000115 obo:CL_0002083 "A chromaffin cell of the adrenal medulla that produces norepinephrine."^^xsd:string)
AnnotationAssertion(oboInOwl:created_by obo:CL_0002083 "tmeehan"^^xsd:string)
AnnotationAssertion(oboInOwl:creation_date obo:CL_0002083 "2010-07-14T10:12:24Z"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002083 "FMA:69321"^^xsd:string)
Expand Down Expand Up @@ -14547,7 +14547,7 @@ EquivalentClasses(obo:CL_0002089 ObjectIntersectionOf(obo:CL_0001069 ObjectSomeV

# Class: obo:CL_0002090 (polar body)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) Annotation(oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Polar_body"^^xsd:string) obo:IAO_0000115 obo:CL_0002090 "One of two small cells formed by the first and second meiotic division of oocytes."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") Annotation(oboInOwl:hasDbXref "http://en.wikipedia.org/wiki/Polar_body"^^xsd:string) obo:IAO_0000115 obo:CL_0002090 "One of two small cells formed by the first and second meiotic division of oocytes."^^xsd:string)
AnnotationAssertion(oboInOwl:created_by obo:CL_0002090 "tmeehan"^^xsd:string)
AnnotationAssertion(oboInOwl:creation_date obo:CL_0002090 "2010-08-23T09:49:53Z"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002090 "EHDAA2:0004716"^^xsd:string)
Expand All @@ -14560,7 +14560,7 @@ SubClassOf(obo:CL_0002090 obo:CL_0000021)

# Class: obo:CL_0002091 (primary polar body)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) obo:IAO_0000115 obo:CL_0002091 "A small cell formed by the first meiotic division of oocytes."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") obo:IAO_0000115 obo:CL_0002091 "A small cell formed by the first meiotic division of oocytes."^^xsd:string)
AnnotationAssertion(oboInOwl:created_by obo:CL_0002091 "tmeehan"^^xsd:string)
AnnotationAssertion(oboInOwl:creation_date obo:CL_0002091 "2010-08-23T09:49:58Z"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002091 "EHDAA2:0000541"^^xsd:string)
Expand Down Expand Up @@ -14588,7 +14588,7 @@ SubClassOf(Annotation(oboInOwl:is_inferred "true"^^xsd:string) obo:CL_0002092 ob

# Class: obo:CL_0002093 (secondary polar body)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) obo:IAO_0000115 obo:CL_0002093 "A small cell formed by the second meiotic division of oocytes. In mammals, the second polar body may fail to form unless the ovum has been penetrated by a sperm cell."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") obo:IAO_0000115 obo:CL_0002093 "A small cell formed by the second meiotic division of oocytes. In mammals, the second polar body may fail to form unless the ovum has been penetrated by a sperm cell."^^xsd:string)
AnnotationAssertion(oboInOwl:created_by obo:CL_0002093 "tmeehan"^^xsd:string)
AnnotationAssertion(oboInOwl:creation_date obo:CL_0002093 "2010-08-23T09:50:01Z"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002093 "EHDAA2:0001820"^^xsd:string)
Expand All @@ -14613,7 +14613,7 @@ SubClassOf(obo:CL_0002094 obo:CL_0002132)

# Class: obo:CL_0002095 (hilus cell of ovary)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) obo:IAO_0000115 obo:CL_0002095 "A cell in the hilum of the ovary that produces androgens."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") obo:IAO_0000115 obo:CL_0002095 "A cell in the hilum of the ovary that produces androgens."^^xsd:string)
AnnotationAssertion(oboInOwl:created_by obo:CL_0002095 "tmeehan"^^xsd:string)
AnnotationAssertion(oboInOwl:creation_date obo:CL_0002095 "2010-08-23T11:18:18Z"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002095 "FMA:18710"^^xsd:string)
Expand Down Expand Up @@ -15305,7 +15305,7 @@ SubClassOf(obo:CL_0002152 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_000045

# Class: obo:CL_0002153 (corneocyte)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) obo:IAO_0000115 obo:CL_0002153 "The dead keratin-filled squamous cell of the stratum corneum. This cell type lacks a nucleus."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") obo:IAO_0000115 obo:CL_0002153 "The dead keratin-filled squamous cell of the stratum corneum. This cell type lacks a nucleus."^^xsd:string)
AnnotationAssertion(oboInOwl:created_by obo:CL_0002153 "tmeehan"^^xsd:string)
AnnotationAssertion(oboInOwl:creation_date obo:CL_0002153 "2010-08-24T10:53:03Z"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002153 "BTO:0001943"^^xsd:string)
Expand Down Expand Up @@ -16348,7 +16348,7 @@ SubClassOf(obo:CL_0002244 obo:CL_0002371)

# Class: obo:CL_0002245 (obsolete null lymphocyte)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) obo:IAO_0000115 obo:CL_0002245 "OBSOLETE: A lymphocyte that lacks T or B cell surface markers."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") obo:IAO_0000115 obo:CL_0002245 "OBSOLETE: A lymphocyte that lacks T or B cell surface markers."^^xsd:string)
AnnotationAssertion(oboInOwl:created_by obo:CL_0002245 "tmeehan"^^xsd:string)
AnnotationAssertion(oboInOwl:creation_date obo:CL_0002245 "2010-09-07T03:43:42Z"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002245 "FMA:83601"^^xsd:string)
Expand Down Expand Up @@ -17278,7 +17278,7 @@ SubClassOf(obo:CL_0002321 obo:CL_0000548)

# Class: obo:CL_0002322 (embryonic stem cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:dsd"^^xsd:string) Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X"^^xsd:string) Annotation(oboInOwl:hasDbXref "PMID:18179856"^^xsd:string) obo:IAO_0000115 obo:CL_0002322 "A stem cell of embryonic origin."^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:dsd"^^xsd:string) Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:068340007X") Annotation(oboInOwl:hasDbXref "PMID:18179856"^^xsd:string) obo:IAO_0000115 obo:CL_0002322 "A stem cell of embryonic origin."^^xsd:string)
AnnotationAssertion(oboInOwl:created_by obo:CL_0002322 "tmeehan"^^xsd:string)
AnnotationAssertion(oboInOwl:creation_date obo:CL_0002322 "2010-09-15T03:44:35Z"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0002322 "BTO:0001086"^^xsd:string)
Expand Down Expand Up @@ -27000,5 +27000,4 @@ SubClassOf(obo:D96882F1-8709-49AB-BCA9-772A67EA6C33 obo:GO_0005634)


SubClassOf(Annotation(oboInOwl:hasDbXref <https://github.com/obophenotype/cell-ontology/issues/757>) ObjectIntersectionOf(obo:CL_0000540 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_7742)) ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000031))
SubClassOf(ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_9606) ObjectIntersectionOf(ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001345) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001800) ObjectSomeValuesFrom(obo:RO_0002104 obo:PR_000001843) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0001649) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0016477) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0030182) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0030855) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0045444) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0055007) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0060591) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part> obo:GO_0042613) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part> obo:PR_000001003) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part> obo:PR_000001006)))
)

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