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Added new protein term #291

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merged 10 commits into from
Sep 15, 2023
Merged

Added new protein term #291

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9984716
Added new protein term
ar-ibrahim Sep 11, 2023
67d0592
Update dosdp patterns file
ar-ibrahim Sep 11, 2023
b676bb2
Update EQL
ar-ibrahim Sep 12, 2023
6be0e62
Update dosdp patterns file
ar-ibrahim Sep 12, 2023
3fdfc9f
Revert "Update dosdp patterns file"
ar-ibrahim Sep 12, 2023
5933bda
Revert "Update EQL"
ar-ibrahim Sep 12, 2023
c713506
Update dosdp patterns file
ar-ibrahim Sep 12, 2023
dcd48aa
Update entity_attribute_location.tsv
ar-ibrahim Sep 12, 2023
b3359a7
Update definitions.owl
ar-ibrahim Sep 12, 2023
58292c8
Update dosdp patterns file
ar-ibrahim Sep 12, 2023
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8 changes: 4 additions & 4 deletions src/ontology/imports/merged_import.owl
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Expand Up @@ -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/2023-09-09/imports/merged_import.owl>
Annotation(owl:versionInfo "2023-09-09")
<http://purl.obolibrary.org/obo/oba/releases/2023-09-11/imports/merged_import.owl>
Annotation(owl:versionInfo "2023-09-11")

Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000001>))
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000002>))
Expand Down Expand Up @@ -49830,7 +49830,7 @@ SubObjectPropertyOf(<http://purl.obolibrary.org/obo/GOREL_0002004> <http://purl.
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/MONDO_0100332> "disease has primary infectious agent")
SubObjectPropertyOf(<http://purl.obolibrary.org/obo/MONDO_0100332> <http://purl.obolibrary.org/obo/RO_0014001>)

# Object Property: <http://purl.obolibrary.org/obo/RO_0000052> (characteristic of)
# Object Property: <http://purl.obolibrary.org/obo/RO_0000052> (inheres in)

AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000111> <http://purl.obolibrary.org/obo/RO_0000052> "inheres in"@en)
AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000112> <http://purl.obolibrary.org/obo/RO_0000052> "this fragility is a characteristic of this vase"@en)
Expand Down Expand Up @@ -51123,7 +51123,7 @@ 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")
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1 change: 1 addition & 0 deletions src/patterns/data/default/entity_attribute_location.tsv
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Expand Up @@ -5343,3 +5343,4 @@ OBA:2050337 level of eukaryotic translation initiation factor 4E-binding protein
OBA:2045206 level of serum globulin type protein CHEBI:166899 globulin type PATO:0000070 amount UBERON:0001977 serum level of serum non-albumin protein|serum non-albumin protein amount https://orcid.org/0000-0001-8314-2140
OBA:2045207 level of serum albumin type protein CHEBI:166964 albumin type PATO:0000070 amount UBERON:0001977 serum level of serum albumin type protein|serum albumin type protein amount https://orcid.org/0000-0001-8314-2140
OBA:2045209 level of taurine in blood serum CHEBI:15891 taurine PATO:0000070 amount UBERON:0001977 serum https://orcid.org/0000-0001-8314-2140
OBA:2050349 level of interleukin-12 subunit beta in blood PR:000001369 interleukin-12 subunit beta PATO:0000070 amount UBERON:0000178 blood blood IL-12B amount https://orcid.org/0000-0001-6757-4744
14 changes: 12 additions & 2 deletions src/patterns/definitions.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -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/2023-09-09/patterns/definitions.owl>
Annotation(owl:versionInfo "2023-09-09"^^xsd:string)
<http://purl.obolibrary.org/obo/oba/releases/2023-09-12/patterns/definitions.owl>
Annotation(owl:versionInfo "2023-09-12"^^xsd:string)

Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_10033>))
Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_10112>))
Expand Down Expand Up @@ -12254,6 +12254,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050334>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050335>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050336>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050337>))
Declaration(Class(<http://purl.obolibrary.org/obo/OBA_2050349>))
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>))
Expand Down Expand Up @@ -102224,6 +102225,15 @@ AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#has
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_2050337> "level of eukaryotic translation initiation factor 4E-binding protein 1 in blood plasma"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_2050337> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PR_000006994> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0001969>)))))

# Class: <http://purl.obolibrary.org/obo/OBA_2050349> (level of interleukin-12 subunit beta in blood)

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_2050349> "The amount of a interleukin-12 subunit beta when measured in blood."^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/OBA_2050349> "https://orcid.org/0000-0001-6757-4744"^^xsd:string)
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/OBA_2050349> "blood IL-12B amount"^^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_2050349> "blood interleukin-12 subunit beta amount"^^xsd:string)
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBA_2050349> "level of interleukin-12 subunit beta in blood"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/OBA_2050349> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000070> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PR_000001369> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0000178>)))))

# 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)
Expand Down
6 changes: 5 additions & 1 deletion src/patterns/pattern.owl
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Expand Up @@ -82,9 +82,10 @@ EquivalentClasses(<http://purl.obolibrary.org/obo/oba/patterns/disease_onset.yam

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/patterns/entity_attribute.yaml> "The 'quality' of a 'thing'."^^xsd:string)
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/patterns/entity_attribute.yaml> "The 'quality' of a 'thing'."^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute.yaml> "xsd:anyURI"^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/title> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute.yaml> "entity_attribute"^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/title> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute.yaml> "entity_attribute_part_of"^^xsd:string)
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute.yaml> "xsd:string"^^xsd:string)
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute.yaml> "xsd:anyURI"^^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/patterns/entity_attribute.yaml> "'quality' of 'thing'"^^xsd:string)
AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "obo:oba/patterns/entity_attribute_part_of"^^xsd:string) <http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute.yaml> "'quality' of 'thing'"^^xsd:string)
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute.yaml> "xsd:string"^^xsd:string)
Expand All @@ -95,8 +96,11 @@ EquivalentClasses(<http://purl.obolibrary.org/obo/oba/patterns/entity_attribute.
# Class: <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute_location.yaml> ('quality' of 'thing' in 'thing')

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/patterns/entity_attribute_location.yaml> "The 'quality' of a 'thing' when measured in 'thing'."^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute_location.yaml> "xsd:anyURI"^^xsd:string)
AnnotationAssertion(<http://purl.org/dc/terms/title> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute_location.yaml> "entity_attribute_location"^^xsd:string)
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute_location.yaml> "xsd:anyURI"^^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/patterns/entity_attribute_location.yaml> "'thing' 'thing' 'quality'"^^xsd:string)
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute_location.yaml> "xsd:string"^^xsd:string)
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/oba/patterns/entity_attribute_location.yaml> "'quality' of 'thing' in 'thing'"^^xsd:string)
EquivalentClasses(<http://purl.obolibrary.org/obo/oba/patterns/entity_attribute_location.yaml> ObjectIntersectionOf(<http://purl.obolibrary.org/obo/PATO_0000001> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0000052> ObjectIntersectionOf(owl:Thing ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> owl:Thing)))))

Expand Down