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Merge pull request #146 from obophenotype/issue85mass
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Add or map 'mass' related terms from VT
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@rays22
rays22 authored Dec 7, 2023
2 parents 444fb92 + 801fbc6 commit 2a0f467
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2 changes: 2 additions & 0 deletions src/patterns/data/default/entity_attribute.tsv
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Expand Up @@ -4385,3 +4385,5 @@ OBA:2045451 attribute of response to allergen in serum UBERON:0001977 blood ser
OBA:2045452 attribute of response to thyroid hormone in plasma UBERON:0001969 blood plasma OBA:2045454 attribute of response to thyroid hormone https://orcid.org/0000-0001-8314-2140
OBA:2030004 total skin mass UBERON:0002097 skin of body PATO:0000125 mass mass of the entire skin https://orcid.org/0000-0003-2699-3066
OBA:2050351 breast density UBERON:0000310 breast PATO:0001019 mass density breast tissue density PMID:37345113 https://orcid.org/0000-0001-6757-4744
OBA:VT1000472 subcutaneous adipose mass UBERON:0002190 subcutaneous adipose tissue PATO:0000125 mass https://orcid.org/0000-0001-8314-2140
OBA:VT0010482 body fat mass UBERON:0001013 adipose tissue PATO:0000125 mass https://orcid.org/0000-0001-8314-2140
1 change: 1 addition & 0 deletions src/patterns/data/default/entity_attribute_location.tsv
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Expand Up @@ -5452,3 +5452,4 @@ OBA:2045447 oxygen concentration in capillary blood CHEBI:25805 oxygen atom PAT
OBA:2045448 attribute of response to heparin in plasma CHEBI:28304 heparin PATO:0000077 response to UBERON:0001969 blood plasma https://orcid.org/0000-0001-8314-2140
OBA:2045449 plasma thyroxine level CHEBI:30660 thyroxine PATO:0000070 amount UBERON:0001969 blood plasma https://orcid.org/0000-0001-8314-2140
OBA:2045450 blood hemoglobin attribute CHEBI:35143 hemoglobin PATO:0000001 quality UBERON:0000178 blood blood haemoglobin attribute https://orcid.org/0000-0001-8314-2140
OBA:VT0010690 pericardial fat pad mass UBERON:0003916 fat pad PATO:0000125 mass UBERON:0035814 pericardial fat https://orcid.org/0000-0001-8314-2140
29 changes: 29 additions & 0 deletions src/patterns/definitions.owl
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Expand Up @@ -14657,6 +14657,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010476>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010477>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010480>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010481>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010482>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010484>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010487>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010489>))
Expand Down Expand Up @@ -14725,6 +14726,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010676>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010677>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010679>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010684>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010690>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010693>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010694>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT0010695>))
Expand Down Expand Up @@ -14860,6 +14862,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000434>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000435>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000436>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000444>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000472>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000479>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000574>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_VT1000575>))
Expand Down Expand Up @@ -119498,6 +119501,14 @@ AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#has
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT0010481> "blood immunoglobulin M amount"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT0010481> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/GO_0071754> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000178>)))))

# Class: <http://purl.obolibrary.org/obo/OBA_VT0010482> (body fat mass)

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_VT0010482> "The mass of a adipose tissue."^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/OBA_VT0010482> "https://orcid.org/0000-0001-8314-2140"^^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_VT0010482> "mass of adipose tissue"^^xsd:string)
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT0010482> "body fat mass"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT0010482> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0001013>)))

# Class: <http://purl.obolibrary.org/obo/OBA_VT0010484> (nervous system serotonin amount)

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "AUTO:patterns/patterns/entity_attribute_location"^^xsd:string) <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBA_VT0010484> "The amount of a serotonin when measured in nervous system."^^xsd:string)
Expand Down Expand Up @@ -119974,6 +119985,14 @@ AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#has
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT0010684> "peritoneum morphology"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT0010684> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000051> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0002314> <http://purl.obolibrary.org/obo/UBERON_0002358>)))

# Class: <http://purl.obolibrary.org/obo/OBA_VT0010690> (pericardial fat pad mass)

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "AUTO:patterns/patterns/entity_attribute_location"^^xsd:string) <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBA_VT0010690> "The mass of a fat pad when measured in pericardial fat."^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/OBA_VT0010690> "https://orcid.org/0000-0001-8314-2140"^^xsd:string)
AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "AUTO:patterns/patterns/entity_attribute_location"^^xsd:string) <http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/OBA_VT0010690> "pericardial fat fat pad mass"^^xsd:string)
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT0010690> "pericardial fat pad mass"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT0010690> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/UBERON_0003916> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0035814>)))))

# Class: <http://purl.obolibrary.org/obo/OBA_VT0010693> (longissimus muscle morphology)

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "obo:oba/patterns/entity_attribute_part_of"^^xsd:string) <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBA_VT0010693> "The morphology of a longissimus muscle."^^xsd:string)
Expand Down Expand Up @@ -120921,6 +120940,14 @@ AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#has
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT1000444> "adipose androstenone amount"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT1000444> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/CHEBI_37894> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0001013>)))))

# Class: <http://purl.obolibrary.org/obo/OBA_VT1000472> (subcutaneous adipose mass)

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_VT1000472> "The mass of a subcutaneous adipose tissue."^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/OBA_VT1000472> "https://orcid.org/0000-0001-8314-2140"^^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_VT1000472> "mass of subcutaneous adipose tissue"^^xsd:string)
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_VT1000472> "subcutaneous adipose mass"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_VT1000472> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0002190>)))

# Class: <http://purl.obolibrary.org/obo/OBA_VT1000479> (muscle lipid amount)

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "AUTO:patterns/patterns/entity_attribute_location"^^xsd:string) <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBA_VT1000479> "The amount of a lipid when measured in muscle organ."^^xsd:string)
Expand Down Expand Up @@ -123638,6 +123665,7 @@ SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> Ob
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000995>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0000995>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000996>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0000996>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000998>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0000998>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0001013>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0001013>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0001043>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0001043>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0001052>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0001052>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0001062>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0001062>))))
Expand Down Expand Up @@ -123686,6 +123714,7 @@ SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> Ob
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0002114>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0002114>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0002115>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0002115>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0002116>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0002116>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0002190>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0002190>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0002247>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0002247>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0002366>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0002366>))))
SubClassOf(ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0002367>))) ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000125> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> <http://purl.obolibrary.org/obo/UBERON_0002367>))))
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