Merge pull request #279 from obophenotype/issue_278

Added new 'response to' term + updated imports
obophenotype · Aug 10, 2023 · a29269f · a29269f
2 parents 4f075bc + 08dd633
commit a29269f
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diff --git a/src/ontology/components/obsoletes.owl b/src/ontology/components/obsoletes.owl
@@ -7,8 +7,8 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/oba/components/obsoletes.owl>
-<http://purl.obolibrary.org/obo/oba/releases/2023-08-03/components/obsoletes.owl>
-Annotation(owl:versionInfo "2023-08-03")
+<http://purl.obolibrary.org/obo/oba/releases/2023-08-10/components/obsoletes.owl>
+Annotation(owl:versionInfo "2023-08-10")
 
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_0000037>))
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_0000039>))

diff --git a/src/ontology/components/synonyms.owl b/src/ontology/components/synonyms.owl
@@ -7,8 +7,8 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/oba/components/synonyms.owl>
-<http://purl.obolibrary.org/obo/oba/releases/2023-08-03/components/synonyms.owl>
-Annotation(owl:versionInfo "2023-08-03")
+<http://purl.obolibrary.org/obo/oba/releases/2023-08-10/components/synonyms.owl>
+Annotation(owl:versionInfo "2023-08-10")
 
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_0002546>))
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_0002565>))

diff --git a/src/ontology/imports/merged_import.owl b/src/ontology/imports/merged_import.owl
@@ -7,8 +7,8 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/oba/imports/merged_import.owl>
-<http://purl.obolibrary.org/obo/oba/releases/2023-08-03/imports/merged_import.owl>
-Annotation(owl:versionInfo "2023-08-03")
+<http://purl.obolibrary.org/obo/oba/releases/2023-08-10/imports/merged_import.owl>
+Annotation(owl:versionInfo "2023-08-10")
 
 Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000001>))
 Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000002>))
@@ -86,6 +86,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_134504>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_13497>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_135752>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_135923>))
+Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_135983>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_13601>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_136188>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_136203>))
@@ -51053,7 +51054,7 @@ AnnotationAssertion(rdfs:seeAlso <http://purl.obolibrary.org/obo/RO_0002305> <ht
 SubObjectPropertyOf(<http://purl.obolibrary.org/obo/RO_0002305> <http://purl.obolibrary.org/obo/RO_0002411>)
 SubObjectPropertyOf(<http://purl.obolibrary.org/obo/RO_0002305> <http://purl.obolibrary.org/obo/RO_0004046>)
 
-# Object Property: <http://purl.obolibrary.org/obo/RO_0002314> (inheres in part of)
+# Object Property: <http://purl.obolibrary.org/obo/RO_0002314> (characteristic of part of)
 
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/RO_0002314> "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.")
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000116> <http://purl.obolibrary.org/obo/RO_0002314> "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of")
@@ -52229,7 +52230,7 @@ AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/RO_0004023> "caus
 SubObjectPropertyOf(<http://purl.obolibrary.org/obo/RO_0004023> <http://purl.obolibrary.org/obo/RO_0002410>)
 SubObjectPropertyOf(<http://purl.obolibrary.org/obo/RO_0004023> <http://purl.obolibrary.org/obo/RO_0040035>)
 
-# Object Property: <http://purl.obolibrary.org/obo/RO_0004024> (disease disrupts)
+# Object Property: <http://purl.obolibrary.org/obo/RO_0004024> (disease causes disruption of)
 
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/RO_0004024> "A relationship between a disease and a process where the disease process disrupts the execution of the process.")
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000589> <http://purl.obolibrary.org/obo/RO_0004024> "disease causes disruption of (disease to process)")
@@ -53509,6 +53510,18 @@ AnnotationAssertion(<http://purl.obolibrary.org/obo/chebi/smiles> <http://purl.o
 AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/CHEBI_135923> "migalastat")
 SubClassOf(<http://purl.obolibrary.org/obo/CHEBI_135923> <http://purl.obolibrary.org/obo/CHEBI_26151>)
 
+# Class: <http://purl.obolibrary.org/obo/CHEBI_135983> (teriparatide)
+
+AnnotationAssertion(<http://purl.obolibrary.org/obo/chebi/charge> <http://purl.obolibrary.org/obo/CHEBI_135983> "0")
+AnnotationAssertion(<http://purl.obolibrary.org/obo/chebi/formula> <http://purl.obolibrary.org/obo/CHEBI_135983> "C181H291N55O51S2")
+AnnotationAssertion(<http://purl.obolibrary.org/obo/chebi/inchi> <http://purl.obolibrary.org/obo/CHEBI_135983> "InChI=1S/C181H291N55O51S2/c1-21-96(18)146(236-160(267)114(48-53-141(250)251)212-174(281)132(84-239)232-177(284)143(93(12)13)233-147(254)103(185)82-237)178(285)216-111(45-50-134(187)241)155(262)219-119(65-90(6)7)163(270)213-116(55-62-289-20)158(265)224-124(71-100-79-196-86-203-100)167(274)226-126(73-135(188)242)169(276)217-117(63-88(2)3)148(255)201-81-138(245)205-105(39-27-30-56-182)149(256)223-123(70-99-78-195-85-202-99)166(273)221-121(67-92(10)11)164(271)225-128(75-137(190)244)171(278)231-131(83-238)173(280)214-115(54-61-288-19)157(264)210-112(46-51-139(246)247)153(260)208-109(43-34-60-199-181(193)194)159(266)234-144(94(14)15)175(282)215-113(47-52-140(248)249)156(263)222-122(69-98-77-200-104-38-26-25-37-102(98)104)165(272)220-120(66-91(8)9)161(268)209-108(42-33-59-198-180(191)192)151(258)206-106(40-28-31-57-183)150(257)207-107(41-29-32-58-184)152(259)218-118(64-89(4)5)162(269)211-110(44-49-133(186)240)154(261)228-129(76-142(252)253)172(279)235-145(95(16)17)176(283)229-125(72-101-80-197-87-204-101)168(275)227-127(74-136(189)243)170(277)230-130(179(286)287)68-97-35-23-22-24-36-97/h22-26,35-38,77-80,85-96,103,105-132,143-146,200,237-239H,21,27-34,39-76,81-84,182-185H2,1-20H3,(H2,186,240)(H2,187,241)(H2,188,242)(H2,189,243)(H2,190,244)(H,195,202)(H,196,203)(H,197,204)(H,201,255)(H,205,245)(H,206,258)(H,207,257)(H,208,260)(H,209,268)(H,210,264)(H,211,269)(H,212,281)(H,213,270)(H,214,280)(H,215,282)(H,216,285)(H,217,276)(H,218,259)(H,219,262)(H,220,272)(H,221,273)(H,222,263)(H,223,256)(H,224,265)(H,225,271)(H,226,274)(H,227,275)(H,228,261)(H,229,283)(H,230,277)(H,231,278)(H,232,284)(H,233,254)(H,234,266)(H,235,279)(H,236,267)(H,246,247)(H,248,249)(H,250,251)(H,252,253)(H,286,287)(H4,191,192,198)(H4,193,194,199)/t96-,103-,105-,106-,107-,108-,109-,110-,111-,112-,113-,114-,115-,116-,117-,118-,119-,120-,121-,122-,123-,124-,125-,126-,127-,128-,129-,130-,131-,132-,143-,144-,145-,146-/m0/s1")
+AnnotationAssertion(<http://purl.obolibrary.org/obo/chebi/inchikey> <http://purl.obolibrary.org/obo/CHEBI_135983> "OGBMKVWORPGQRR-UMXFMPSGSA-N")
+AnnotationAssertion(<http://purl.obolibrary.org/obo/chebi/mass> <http://purl.obolibrary.org/obo/CHEBI_135983> "4117.724")
+AnnotationAssertion(<http://purl.obolibrary.org/obo/chebi/monoisotopicmass> <http://purl.obolibrary.org/obo/CHEBI_135983> "4115.13094")
+AnnotationAssertion(<http://purl.obolibrary.org/obo/chebi/smiles> <http://purl.obolibrary.org/obo/CHEBI_135983> "[H]N[C@@H](CO)C(N[C@@H](C(C)C)C(N[C@@H](CO)C(N[C@@H](CCC(O)=O)C(N[C@@H]([C@H](CC)C)C(N[C@@H](CCC(N)=O)C(N[C@@H](CC(C)C)C(N[C@@H](CCSC)C(N[C@@H](CC1=CNC=N1)C(N[C@@H](CC(N)=O)C(N[C@@H](CC(C)C)C(NCC(N[C@@H](CCCCN)C(N[C@@H](CC2=CNC=N2)C(N[C@@H](CC(C)C)C(N[C@@H](CC(N)=O)C(N[C@@H](CO)C(N[C@@H](CCSC)C(N[C@@H](CCC(O)=O)C(N[C@@H](CCCNC(N)=N)C(N[C@@H](C(C)C)C(N[C@@H](CCC(O)=O)C(N[C@@H](CC3=CNC4=C3C=CC=C4)C(N[C@@H](CC(C)C)C(N[C@@H](CCCNC(N)=N)C(N[C@@H](CCCCN)C(N[C@@H](CCCCN)C(N[C@@H](CC(C)C)C(N[C@@H](CCC(N)=O)C(N[C@@H](CC(O)=O)C(N[C@@H](C(C)C)C(N[C@@H](CC5=CNC=N5)C(N[C@@H](CC(N)=O)C(N[C@@H](CC6=CC=CC=C6)C(O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O)=O")
+AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/CHEBI_135983> "teriparatide")
+SubClassOf(<http://purl.obolibrary.org/obo/CHEBI_135983> <http://purl.obolibrary.org/obo/CHEBI_15841>)
+
 # Class: <http://purl.obolibrary.org/obo/CHEBI_13601> (3-oxo-5alpha-steroid)
 
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/CHEBI_13601> "A 3-oxo steroid that has alpha configuration at position 5.")

diff --git a/src/patterns/data/default/response_to_chemical_stimulus_trait.tsv b/src/patterns/data/default/response_to_chemical_stimulus_trait.tsv
@@ -113,3 +113,4 @@ OBA:2040162		CHEBI:6809	methamphetamine	https://orcid.org/0000-0001-8314-2140|ht
 OBA:2040163		CHEBI:27958	cocaine	https://orcid.org/0000-0001-8314-2140|https://orcid.org/0000-0002-7073-9172
 OBA:2040164		CHEBI:18723	nicotine	https://orcid.org/0000-0001-8314-2140|https://orcid.org/0000-0002-7073-9172
 OBA:2050328		CHEBI:72296 	apixaban 	https://orcid.org/0000-0001-6757-4744
+OBA:2050330		CHEBI:135983	teriparatide	https://orcid.org/0000-0001-6757-4744
diff --git a/src/patterns/definitions.owl b/src/patterns/definitions.owl
@@ -7,8 +7,8 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/oba/patterns/definitions.owl>
-<http://purl.obolibrary.org/obo/oba/releases/2023-08-03/patterns/definitions.owl>
-Annotation(owl:versionInfo "2023-08-03"^^xsd:string)
+<http://purl.obolibrary.org/obo/oba/releases/2023-08-10/patterns/definitions.owl>
+Annotation(owl:versionInfo "2023-08-10"^^xsd:string)
 
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_10033>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_10112>))
@@ -21,6 +21,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_132479>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_132992>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_135752>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_135923>))
+Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_135983>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_137137>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_137149>))
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_137571>))
@@ -12218,6 +12219,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050326>))
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050327>))
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050328>))
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050329>))
+Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050330>))
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2060000>))
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2060001>))
 Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2060002>))
@@ -96924,6 +96926,14 @@ AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#has
 AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_2050329> "blood 13,16,19-Docosatrienoic acid amount"^^xsd:string)
 EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_2050329> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/CHEBI_80549> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000178>)))))
 
+# Class: <http://purl.obolibrary.org/obo/OBA_2050330> (trait in response to teriparatide)
+
+AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBA_2050330> "A trait that affects the response to a stimulus with teriparatide."^^xsd:string)
+AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/OBA_2050330> "https://orcid.org/0000-0001-6757-4744"^^xsd:string)
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/OBA_2050330> "response to teriparatide trait"^^xsd:string)
+AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_2050330> "trait in response to teriparatide"^^xsd:string)
+EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_2050330> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0001236> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/GO_0050896> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0002233> <http://purl.obolibrary.org/obo/CHEBI_135983>)))))
+
 # Class: <http://purl.obolibrary.org/obo/OBA_2060000> (aggressive behavior towards inanimate objects rate)
 
 AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "AUTO:patterns/patterns/entity_attribute"^^xsd:string) <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBA_2060000> "The rate of a aggressive behavior towards inanimate objects."^^xsd:string)