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Add quantity related VT terms and synonyms #149

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d11f5b6
Add quantity related VT terms and synonyms
rays22 Sep 26, 2022
225ba5b
Update dosdp patterns file
rays22 Sep 26, 2022
425e909
Fix 3 duplicates
rays22 Sep 27, 2022
10babbb
Update dosdp patterns file
rays22 Sep 27, 2022
7d08fdc
Update entity_attribute_location.tsv
rays22 Sep 27, 2022
07f9eb6
Add new entity_attribute VT terms
rays22 Sep 27, 2022
8d2bc9f
Merge branch 'issue85q' of github.com:obophenotype/bio-attribute-onto…
rays22 Sep 27, 2022
fb15bf1
Update dosdp patterns file
rays22 Sep 27, 2022
7e12fef
Merge branch 'master' into issue85q
rays22 Sep 27, 2022
ffeea0b
Update dosdp patterns file
rays22 Sep 27, 2022
5f8fb99
Merge branch 'master' into issue85q
matentzn Nov 26, 2022
9bf6d0f
Update dosdp patterns file
matentzn Nov 26, 2022
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5 changes: 4 additions & 1 deletion src/mappings/oba-vt.sssom.tsv
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Expand Up @@ -2309,4 +2309,7 @@ VT:0010718 skos:exactMatch OBA:2040163 HumanCurated
VT:0010721 skos:exactMatch OBA:2040164 HumanCurated
VT:0015008 skos:exactMatch OBA:0004528 HumanCurated
VT:0010483 skos:broadMatch OBA:0004147 HumanCurated
VT:0007086 skos:exactMatch OBA:0006021 HumanCurated
VT:0007086 skos:exactMatch OBA:0006021 HumanCurated
VT:0008073 skos:exactMatch OBA:0004294 HumanCurated
VT:0008077 skos:exactMatch OBA:0004295 HumanCurated
VT:0008038 skos:exactMatch OBA:0004281 HumanCurated
2 changes: 2 additions & 0 deletions src/patterns/data/default/entity_attribute.tsv
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Expand Up @@ -7300,3 +7300,5 @@ OBA:2050050 hippocampus molecular layer volume UBERON:0005368 hippocampus molecu
OBA:2050051 cerebral cortex volume UBERON:0000956 cerebral cortex PATO:0000918 volume
OBA:2050052 occipital lobe volume UBERON:0002021 occipital lobe PATO:0000918 volume
OBA:2050053 lentiform nucleus volume UBERON:0002263 lentiform nucleus PATO:0000918 volume
OBA:VT1000181 viable offspring quantity PATO:0000276 brood size PATO:0000719 viable
OBA:VT1000189 offspring quantity PATO:0000276 brood size PATO:0000070 amount
19 changes: 19 additions & 0 deletions src/patterns/definitions.owl
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Expand Up @@ -9141,6 +9141,8 @@ Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000126>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000146>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000149>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000165>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000181>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000189>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000190>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000205>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000206>))
Expand Down Expand Up @@ -9275,6 +9277,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/PATO_0000279>))
Declaration(Class(<http://purl.obolibrary.org/obo/PATO_0000318>))
Declaration(Class(<http://purl.obolibrary.org/obo/PATO_0000383>))
Declaration(Class(<http://purl.obolibrary.org/obo/PATO_0000384>))
Declaration(Class(<http://purl.obolibrary.org/obo/PATO_0000719>))
Declaration(Class(<http://purl.obolibrary.org/obo/PATO_0000915>))
Declaration(Class(<http://purl.obolibrary.org/obo/PATO_0000918>))
Declaration(Class(<http://purl.obolibrary.org/obo/PATO_0000921>))
Expand Down Expand Up @@ -65629,6 +65632,20 @@ AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#has
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT1000165> "milk protein amount"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT1000165> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/CHEBI_36080> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0001913>)))))

# Class: <http://purl.obolibrary.org/obo/OBA_VT1000181> (viable offspring quantity)

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_VT1000181> "The http://purl.obolibrary.org/obo/PATO_0000719 of a brood size."^^xsd:string)
AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "AUTO:patterns/patterns/entity_attribute"^^xsd:string) <http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/OBA_VT1000181> "http://purl.obolibrary.org/obo/PATO_0000719 of brood size"^^xsd:string)
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT1000181> "viable offspring quantity"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT1000181> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000719> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/PATO_0000276>)))

# Class: <http://purl.obolibrary.org/obo/OBA_VT1000189> (offspring quantity)

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_VT1000189> "The amount of a brood size."^^xsd:string)
AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "AUTO:patterns/patterns/entity_attribute"^^xsd:string) <http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/OBA_VT1000189> "amount of brood size"^^xsd:string)
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT1000189> "offspring quantity"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT1000189> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/PATO_0000276>)))

# Class: <http://purl.obolibrary.org/obo/OBA_VT1000190> (estrus intensity)

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_VT1000190> "The intensity of a estrus."^^xsd:string)
Expand Down Expand Up @@ -70098,6 +70115,7 @@ SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> Ob
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/GO_0097208>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/GO_0097208>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/GO_0097227>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/GO_0097227>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/GO_0098846>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/GO_0098846>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/PATO_0000276>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/PATO_0000276>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/PR_000000001>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/PR_000000001>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/PR_000000046>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/PR_000000046>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/PR_000000134>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/PR_000000134>))))
Expand Down Expand Up @@ -72229,6 +72247,7 @@ SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000279> Ob
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000318> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0001769>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000318> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0001769>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000383> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/GO_0051321>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000383> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/GO_0051321>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000384> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/GO_0051321>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000384> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/GO_0051321>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000719> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/PATO_0000276>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000719> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/PATO_0000276>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000915> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/GO_0030425>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000915> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/GO_0030425>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000915> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000014>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000915> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0000014>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000915> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000314>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000915> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0000314>))))
Expand Down