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Merge pull request #2331 from EBISPOT/import_OBA-terms
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imported OBA terms for GWAS
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@ar-ibrahim
ar-ibrahim authored Dec 16, 2024
2 parents 0ab9493 + 5c9dc05 commit e5f091f
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22 changes: 22 additions & 0 deletions src/ontology/components/subclasses.owl
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<!-- http://purl.obolibrary.org/obo/OBA_2051963 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBA_2051963">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/GO_0036277"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBA_VT0000277 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBA_VT0000277">
<rdfs:subClassOf rdf:resource="http://www.ebi.ac.uk/efo/EFO_0000651"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBA_VT0010487 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBA_VT0010487">
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<!-- http://www.ebi.ac.uk/efo/EFO_0000651 -->

<owl:Class rdf:about="http://www.ebi.ac.uk/efo/EFO_0000651"/>



<!-- http://www.ebi.ac.uk/efo/EFO_0003334 -->

<owl:Class rdf:about="http://www.ebi.ac.uk/efo/EFO_0003334"/>
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346 changes: 346 additions & 0 deletions src/ontology/imports/oba_bot.owl
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120 changes: 120 additions & 0 deletions src/ontology/imports/oba_import.owl
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Expand Up @@ -376,6 +376,15 @@



<!-- http://purl.obolibrary.org/obo/CHEBI_42797 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_42797">
<obo:IAO_0000115>A gamma-amino acid that is cyclohexane substituted at position 1 by aminomethyl and carboxymethyl groups. Used for treatment of neuropathic pain and restless legs syndrome.</obo:IAO_0000115>
<rdfs:label>gabapentin</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CHEBI_42977 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_42977">
Expand Down Expand Up @@ -817,6 +826,14 @@



<!-- http://purl.obolibrary.org/obo/MONDO_0015494 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0015494">
<rdfs:label>isolated dystonia</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/MONDO_0016158 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0016158">
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<!-- http://purl.obolibrary.org/obo/OBA_2051963 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBA_2051963">
<obo:IAO_0000115>A trait that affects the response to a stimulus with gabapentin.</obo:IAO_0000115>
<terms:contributor>https://orcid.org/0000-0001-6757-4744</terms:contributor>
<oboInOwl:hasExactSynonym>response to gabapentin trait</oboInOwl:hasExactSynonym>
<rdfs:label>trait in response to gabapentin</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBA_2051964 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBA_2051964">
<owl:equivalentClass>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/HP_0003674"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000052"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MONDO_0015494"/>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:equivalentClass>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/OBA_2020000"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000052"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MONDO_0015494"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>The age at which isolated dystonia manifestations first appear.</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>age at onset of isolated dystonia</oboInOwl:hasExactSynonym>
<oboInOwl:hasExactSynonym>age isolated dystonia symptoms begin</oboInOwl:hasExactSynonym>
<rdfs:label>age of onset of isolated dystonia</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBA_2051965 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBA_2051965">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/PATO_0000070"/>
<obo:IAO_0000115>The amount of a apolipoprotein(a) when measured in blood.</obo:IAO_0000115>
<terms:contributor>https://orcid.org/0000-0001-6757-4744</terms:contributor>
<oboInOwl:hasDbXref>PMID:36959364</oboInOwl:hasDbXref>
<oboInOwl:hasExactSynonym>blood apolipoprotein(a) amount</oboInOwl:hasExactSynonym>
<rdfs:label>amount of apolipoprotein(a) in blood</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/OBA_2051965"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>The amount of a apolipoprotein(a) when measured in blood.</owl:annotatedTarget>
<oboInOwl:hasDbXref>AUTO:patterns/patterns/entity_attribute_location</oboInOwl:hasDbXref>
</owl:Axiom>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/OBA_2051965"/>
<owl:annotatedProperty rdf:resource="http://www.geneontology.org/formats/oboInOwl#hasExactSynonym"/>
<owl:annotatedTarget>blood apolipoprotein(a) amount</owl:annotatedTarget>
<oboInOwl:hasDbXref>AUTO:patterns/patterns/entity_attribute_location</oboInOwl:hasDbXref>
</owl:Axiom>



<!-- http://purl.obolibrary.org/obo/OBA_VT0000277 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBA_VT0000277">
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000052"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/UBERON_0001062"/>
</owl:Restriction>
</rdfs:subClassOf>
<obo:IAO_0000115>The shape of a heart.</obo:IAO_0000115>
<oboInOwl:hasExactSynonym>shape of heart</oboInOwl:hasExactSynonym>
<rdfs:label>heart shape trait</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/OBA_VT0000277"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>The shape of a heart.</owl:annotatedTarget>
<oboInOwl:hasDbXref>AUTO:patterns/patterns/entity_attribute</oboInOwl:hasDbXref>
</owl:Axiom>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/OBA_VT0000277"/>
<owl:annotatedProperty rdf:resource="http://www.geneontology.org/formats/oboInOwl#hasExactSynonym"/>
<owl:annotatedTarget>shape of heart</owl:annotatedTarget>
<oboInOwl:hasDbXref>AUTO:patterns/patterns/entity_attribute</oboInOwl:hasDbXref>
</owl:Axiom>



<!-- http://purl.obolibrary.org/obo/OBA_VT0008631 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBA_VT0008631">
Expand Down Expand Up @@ -187896,6 +188006,16 @@



<!-- http://purl.obolibrary.org/obo/PR_000009888 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/PR_000009888">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_36080"/>
<rdfs:comment>Category=gene.</rdfs:comment>
<rdfs:label>apolipoprotein(a)</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/PR_000009891 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/PR_000009891">
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7 changes: 7 additions & 0 deletions src/ontology/imports/oba_terms.txt
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Expand Up @@ -30,6 +30,7 @@ http://purl.obolibrary.org/obo/CHEBI_36080
http://purl.obolibrary.org/obo/CHEBI_3732
http://purl.obolibrary.org/obo/CHEBI_37812
http://purl.obolibrary.org/obo/CHEBI_42025
http://purl.obolibrary.org/obo/CHEBI_42797
http://purl.obolibrary.org/obo/CHEBI_42977
http://purl.obolibrary.org/obo/CHEBI_45863
http://purl.obolibrary.org/obo/CHEBI_52649
Expand Down Expand Up @@ -85,6 +86,7 @@ http://purl.obolibrary.org/obo/MONDO_0005575
http://purl.obolibrary.org/obo/MONDO_0007079
http://purl.obolibrary.org/obo/MONDO_0007182
http://purl.obolibrary.org/obo/MONDO_0007739
http://purl.obolibrary.org/obo/MONDO_0015494
http://purl.obolibrary.org/obo/MONDO_0016158
http://purl.obolibrary.org/obo/MONDO_0017276
http://purl.obolibrary.org/obo/MONDO_0018177
Expand Down Expand Up @@ -6775,6 +6777,10 @@ http://purl.obolibrary.org/obo/OBA_2051959
http://purl.obolibrary.org/obo/OBA_2051960
http://purl.obolibrary.org/obo/OBA_2051961
http://purl.obolibrary.org/obo/OBA_2051962
http://purl.obolibrary.org/obo/OBA_2051963
http://purl.obolibrary.org/obo/OBA_2051964
http://purl.obolibrary.org/obo/OBA_2051965
http://purl.obolibrary.org/obo/OBA_VT0000277
http://purl.obolibrary.org/obo/OBA_VT0008631
http://purl.obolibrary.org/obo/OBA_VT0010487
http://purl.obolibrary.org/obo/PATO_0000070
Expand Down Expand Up @@ -9191,6 +9197,7 @@ http://purl.obolibrary.org/obo/PR_000009878
http://purl.obolibrary.org/obo/PR_000009880
http://purl.obolibrary.org/obo/PR_000009885
http://purl.obolibrary.org/obo/PR_000009886
http://purl.obolibrary.org/obo/PR_000009888
http://purl.obolibrary.org/obo/PR_000009891
http://purl.obolibrary.org/obo/PR_000009894
http://purl.obolibrary.org/obo/PR_000009897
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7 changes: 7 additions & 0 deletions src/ontology/iri_dependencies/oba_terms.txt
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Expand Up @@ -13242,3 +13242,10 @@ http://purl.obolibrary.org/obo/PR_Q8WXW3
http://purl.obolibrary.org/obo/PR_000012896
http://purl.obolibrary.org/obo/PATO_0000070
http://purl.obolibrary.org/obo/CHEBI_36080
http://purl.obolibrary.org/obo/OBA_VT0000277
http://purl.obolibrary.org/obo/OBA_2051963
http://purl.obolibrary.org/obo/CHEBI_42797
http://purl.obolibrary.org/obo/OBA_2051964
http://purl.obolibrary.org/obo/MONDO_0015494
http://purl.obolibrary.org/obo/OBA_2051965
http://purl.obolibrary.org/obo/PR_000009888
4 changes: 2 additions & 2 deletions src/ontology/reports/class-count-by-prefix.tsv
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Expand Up @@ -9,7 +9,7 @@
"ZEA" 1
"ZFA" 34
"PO" 215
"PR" 5569
"PR" 5570
"BTO" 74
"MP" 3
"HP" 1885
Expand All @@ -33,5 +33,5 @@
"" 24381
"GO" 724
"EO" 43
"OBA" 6686
"OBA" 6690
"PATO" 34
2 changes: 2 additions & 0 deletions src/templates/subclasses.csv
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Expand Up @@ -4887,3 +4887,5 @@ OBA:2050418,BFO:0000019
OBA:2050420,EFO:0005533
OBA:2050421,GO:0046677
HP:0009800,EFO:0000352
OBA:VT0000277,EFO:0000651
OBA:2051963,GO:0036277

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