diff --git a/efo-base.owl b/efo-base.owl index 1342ce3f..d26c5ba1 100644 --- a/efo-base.owl +++ b/efo-base.owl @@ -40,7 +40,7 @@ Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License. www.apache.org/licenses/LICENSE-2.0 - 2024-04-12 + 2024-04-15 3.64.0 @@ -20287,7 +20287,7 @@ A Daudi Burkitt's lymphoma cell line is bearer of Daudi Burkitt's lymp ductal adenocarcinoma DOID:3008 - NCIT:C4017 + NCIT:C4017 @@ -24349,7 +24349,7 @@ label: abdominal cavity lymphoblastic leukemia, acute - MONDO:patterns/acute + MONDO:patterns/acute @@ -24830,7 +24830,7 @@ label: abdominal cavity monocytic leukemia, acute - MONDO:patterns/acute + MONDO:patterns/acute @@ -25429,7 +25429,7 @@ label: abdominal cavity myeloid leukemia, acute - MONDO:patterns/acute + MONDO:patterns/acute @@ -35226,7 +35226,7 @@ New Label : Chordoma gastritis (disease), chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -35701,7 +35701,7 @@ New Label : Chronic granulomatous disease myeloid leukemia, chronic DOID:8552 - MONDO:patterns/chronic + MONDO:patterns/chronic MTH:NOCODE @@ -36006,7 +36006,7 @@ New Label : Chronic granulomatous disease obstructive lung disease, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -36136,7 +36136,7 @@ New Label : Chronic granulomatous disease pancreatitis, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -113997,7 +113997,7 @@ A Jiyoye is bearer of a Burkitt's lymphoma. myeloproliferative neoplasm, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -131110,7 +131110,7 @@ A MIN6 derives from a mus musculus. sarcoma of body of uterus - MONDO:patterns/sarcoma + MONDO:patterns/sarcoma @@ -132220,7 +132220,7 @@ A MIN6 derives from a mus musculus. sarcoma of mammalian vulva - MONDO:patterns/sarcoma + MONDO:patterns/sarcoma @@ -168275,7 +168275,7 @@ label: aortic valve kidney disease, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -184213,7 +184213,7 @@ New Label : Moyamoya disease myeloproliferative neoplasm, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -210575,7 +210575,7 @@ Small-inducible cytokine A11. lung NET - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm @@ -210601,13 +210601,13 @@ Small-inducible cytokine A11. lung neuroendocrine tumor MONDO:patterns/location - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm lung neuroendocrine tumor, well differentiated, low or intermediate grade - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm @@ -210619,7 +210619,7 @@ Small-inducible cytokine A11. neuroendocrine neoplasm of lung - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm NCIT:C5670 @@ -226764,7 +226764,7 @@ Sira's response: seperate out HCA and HCS. This is different from ERO where peritoneal mesothelioma (disease), malignant - MONDO:patterns/malignant + MONDO:patterns/malignant @@ -249909,7 +249909,7 @@ Use: http://purl.obolibrary.org/obo/CHEBI_22676 periodontitis, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -257189,7 +257189,7 @@ Use: http://purl.obolibrary.org/obo/CHEBI_22676 bronchitis, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -349307,7 +349307,7 @@ of diseased coronary vessels at the time of a catheterization procedure. The var Chronic form of venous insufficiency (disease). - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -349331,7 +349331,7 @@ of diseased coronary vessels at the time of a catheterization procedure. The var venous insufficiency (disease), chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -358661,7 +358661,7 @@ label: granulocyte colony-stimulating factor measurement interstitial cystitis, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -361807,7 +361807,7 @@ label: granulocyte colony-stimulating factor measurement breast phyllodes tumor, malignant - MONDO:patterns/malignant + MONDO:patterns/malignant @@ -535566,7 +535566,7 @@ A syndrome typically consisting of angina (cardiac chest pain) at rest that occu cystitis, chronic - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -535606,7 +535606,7 @@ A syndrome typically consisting of angina (cardiac chest pain) at rest that occu Chronic form of sinusitis. - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -535657,7 +535657,7 @@ A syndrome typically consisting of angina (cardiac chest pain) at rest that occu sinusitis, chronic MONDO:design_pattern - MONDO:patterns/chronic + MONDO:patterns/chronic @@ -549779,7 +549779,7 @@ Label : Disorder of carbohydrate metabolism malignant biphasic mesothelioma, malignant - MONDO:patterns/malignant + MONDO:patterns/malignant @@ -553789,13 +553789,13 @@ Label : Disorder of carbohydrate metabolism caecum NET G1 - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 caecum carcinoid tumor - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 NCIT:C5501 @@ -553820,7 +553820,7 @@ Label : Disorder of carbohydrate metabolism caecum neuroendocrine tumor, well differentiated, low grade - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -553898,7 +553898,7 @@ Label : Disorder of carbohydrate metabolism grade 1 neuroendocrine neoplasm of caecum - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -559070,14 +559070,14 @@ Label : Disorder of carbohydrate metabolism colon NET G1 - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 NCIT:C5497 colon carcinoid tumor - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 NCIT:C5497 @@ -559120,7 +559120,7 @@ Label : Disorder of carbohydrate metabolism colon neuroendocrine tumor, well differentiated, low grade - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -559138,7 +559138,7 @@ Label : Disorder of carbohydrate metabolism grade 1 neuroendocrine neoplasm of colon - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -560084,13 +560084,13 @@ Label : Disorder of carbohydrate metabolism colorectum NET G1 - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 colorectum carcinoid tumor - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -560102,13 +560102,13 @@ Label : Disorder of carbohydrate metabolism colorectum neuroendocrine tumor, well differentiated, low grade - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 grade 1 neuroendocrine neoplasm of colorectum - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -570478,19 +570478,19 @@ Label : Disorder of carbohydrate metabolism grade 1 neuroendocrine neoplasm of stomach - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 stomach NET G1 - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 stomach carcinoid tumor - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -570502,7 +570502,7 @@ Label : Disorder of carbohydrate metabolism stomach neuroendocrine tumor, well differentiated, low grade - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -574506,7 +574506,7 @@ Label : Disorder of carbohydrate metabolism grade 1 neuroendocrine neoplasm of ileum - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -574548,13 +574548,13 @@ Label : Disorder of carbohydrate metabolism ileum NET G1 - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 ileum carcinoid tumor - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -574578,7 +574578,7 @@ Label : Disorder of carbohydrate metabolism ileum neuroendocrine tumor, well differentiated, low grade - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -575500,7 +575500,7 @@ Label : Disorder of carbohydrate metabolism grade 1 neuroendocrine neoplasm of jejunum - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -575536,13 +575536,13 @@ Label : Disorder of carbohydrate metabolism jejunum NET G1 - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 jejunum carcinoid tumor - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -575566,7 +575566,7 @@ Label : Disorder of carbohydrate metabolism jejunum neuroendocrine tumor, well differentiated, low grade - MONDO:patterns/neuroendocrine_neoplasm_grade1 + MONDO:patterns/neuroendocrine_neoplasm_grade1 @@ -624525,7 +624525,7 @@ These disorders are common in people of all ages and races. They are characteriz childhood neoplasm, malignant - MONDO:patterns/malignant + MONDO:patterns/malignant @@ -679257,7 +679257,7 @@ Label: Moebius syndrome pulmonary sulcus neoplasm, malignant - MONDO:patterns/malignant + MONDO:patterns/malignant @@ -724599,7 +724599,7 @@ Pain Agnosia, also known as analgesia, is related to chronic pain requiring intr Orphanet:98823 SCTID:127225006 UMLS:C0023480 - CMML + CMML chronic myelomonocytic leukaemia (CMML) chronic myelomonocytic leukemia chronic myelomonocytic leukemia (CMML) @@ -724750,7 +724750,7 @@ Pain Agnosia, also known as analgesia, is related to chronic pain requiring intr - CMML + CMML NCIT:C3178 OMIM:607785 Orphanet:98823 @@ -724759,7 +724759,7 @@ Pain Agnosia, also known as analgesia, is related to chronic pain requiring intr - CMML + CMML NCIT:C3178 Orphanet:98823 @@ -733165,7 +733165,7 @@ It is caused by a number of types of infection such as bacteria, viruses, parasi neuroendocrine neoplasm of small intestine MONDO:design_pattern - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm @@ -733195,7 +733195,7 @@ It is caused by a number of types of infection such as bacteria, viruses, parasi small intestine NET - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm @@ -733221,13 +733221,13 @@ It is caused by a number of types of infection such as bacteria, viruses, parasi small intestine neuroendocrine tumor DOID:4434 - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm small intestine neuroendocrine tumor, well differentiated, low or intermediate grade - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm @@ -733251,7 +733251,7 @@ It is caused by a number of types of infection such as bacteria, viruses, parasi small intestine neuroendocrine tumor, well differentiated, low or intermediate grade - MONDO:patterns/neuroendocrine_neoplasm + MONDO:patterns/neuroendocrine_neoplasm diff --git a/src/ontology/components/subclasses.owl b/src/ontology/components/subclasses.owl index b313baa7..bbabab16 100644 --- a/src/ontology/components/subclasses.owl +++ b/src/ontology/components/subclasses.owl @@ -626,6 +626,14 @@ + + + + + + + + diff --git a/src/ontology/imports/oba_bot.owl b/src/ontology/imports/oba_bot.owl index 793cda6b..4cf3e746 100644 --- a/src/ontology/imports/oba_bot.owl +++ b/src/ontology/imports/oba_bot.owl @@ -764122,6 +764122,49 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + + + + + + + + + + + + + + + + + The sound quality of a vocal organ. + https://orcid.org/0000-0001-6757-4744 + PMID:37294764 + sound quality of vocal organ + voice quality trait + + + + + The sound quality of a vocal organ. + AUTO:patterns/patterns/entity_attribute + + + + + sound quality of vocal organ + AUTO:patterns/patterns/entity_attribute + + + + @@ -806033,6 +806076,15 @@ See https://github.com/pato-ontology/pato/issues/331. + + + + + sound quality + + + + @@ -1200830,6 +1200882,36 @@ See https://github.com/pato-ontology/pato/issues/331. + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff --git a/src/ontology/imports/oba_import.owl b/src/ontology/imports/oba_import.owl index df13dca9..52ee53cb 100644 --- a/src/ontology/imports/oba_import.owl +++ b/src/ontology/imports/oba_import.owl @@ -124885,6 +124885,36 @@ A continuant cannot be part of an occurrent: use 'participates in'. An + + + + + + + + + + The sound quality of a vocal organ. + https://orcid.org/0000-0001-6757-4744 + PMID:37294764 + sound quality of vocal organ + voice quality trait + + + + + The sound quality of a vocal organ. + AUTO:patterns/patterns/entity_attribute + + + + + sound quality of vocal organ + AUTO:patterns/patterns/entity_attribute + + + + @@ -172418,6 +172448,15 @@ A continuant cannot be part of an occurrent: use 'participates in'. An + + + + + vocal organ + + + + + + + + + + + + + + Any organ that is the primary organ of vocalization behavior. Examples: The laryngeal vocal cord (humans), the syrinx (birds). + uberon + UBERON:0034681 + vocal organ + + + + + Any organ that is the primary organ of vocalization behavior. Examples: The laryngeal vocal cord (humans), the syrinx (birds). + http://orcid.org/0000-0002-6601-2165 + + + + diff --git a/src/ontology/imports/uberon_terms.txt b/src/ontology/imports/uberon_terms.txt index 0e68a9de..f68c3ee5 100644 --- a/src/ontology/imports/uberon_terms.txt +++ b/src/ontology/imports/uberon_terms.txt @@ -1010,6 +1010,7 @@ http://purl.obolibrary.org/obo/UBERON_0019189 http://purl.obolibrary.org/obo/UBERON_0019207 http://purl.obolibrary.org/obo/UBERON_0022353 http://purl.obolibrary.org/obo/UBERON_0024151 +http://purl.obolibrary.org/obo/UBERON_0034681 http://purl.obolibrary.org/obo/UBERON_0034705 http://purl.obolibrary.org/obo/UBERON_0034713 http://purl.obolibrary.org/obo/UBERON_0034769 diff --git a/src/ontology/iri_dependencies/oba_terms.txt b/src/ontology/iri_dependencies/oba_terms.txt index ecb2ea57..fd5c1cda 100644 --- a/src/ontology/iri_dependencies/oba_terms.txt +++ b/src/ontology/iri_dependencies/oba_terms.txt @@ -10148,3 +10148,5 @@ http://purl.obolibrary.org/obo/OBA_2040039 http://purl.obolibrary.org/obo/OBA_2040054 http://purl.obolibrary.org/obo/OBA_2040133 http://purl.obolibrary.org/obo/CHEBI_45863 +http://purl.obolibrary.org/obo/OBA_2050418 +http://purl.obolibrary.org/obo/UBERON_0034681 diff --git a/src/ontology/iri_dependencies/uberon_terms.txt b/src/ontology/iri_dependencies/uberon_terms.txt index a2ea980f..376629b6 100644 --- a/src/ontology/iri_dependencies/uberon_terms.txt +++ b/src/ontology/iri_dependencies/uberon_terms.txt @@ -1175,3 +1175,4 @@ http://purl.obolibrary.org/obo/UBERON_0036267 http://purl.obolibrary.org/obo/UBERON_0036268 http://purl.obolibrary.org/obo/UBERON_0036269 http://purl.obolibrary.org/obo/UBERON_0036301 +http://purl.obolibrary.org/obo/UBERON_0034681 diff --git a/src/templates/subclasses.csv b/src/templates/subclasses.csv index 93ff7723..e57453a4 100644 --- a/src/templates/subclasses.csv +++ b/src/templates/subclasses.csv @@ -4883,4 +4883,5 @@ OBA:2040085,GO:0097329 OBA:2040086,GO:0009410 OBA:2040089,GO:0036277 OBA:2040091,EFO:0005657 -HP:0012828,EFO:0010569 \ No newline at end of file +HP:0012828,EFO:0010569 +OBA:2050418,BFO:0000019