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Update the EQ in abnormalLevelOfChemicalEntity #982

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Update the EQ in abnormalLevelOfChemicalEntity #982

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96d18da
Update the EQ in abnormalLevelOfChemicalEntity
rays22 Apr 14, 2025
bbb1366
Merge branch 'master' into issue981
matentzn Aug 18, 2025
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35 changes: 21 additions & 14 deletions src/patterns/dosdp-dev/abnormalLevelOfChemicalEntity.yaml
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Original file line number Diff line number Diff line change
@@ -1,37 +1,42 @@
pattern_name: abnormalLevelOfChemicalEntity
pattern_iri: http://purl.obolibrary.org/obo/upheno/patterns/abnormalLevelOfChemicalEntity.yaml
description: "An abnormal amount of a chemical or protein. For example, MP_0011230 'abnormal folic acid level or HP:0012146 Abnormality of von Willebrand factor.'"
description: "An abnormal amount of a chemical or protein that is part of an
organism. For example, MP_0011230 'abnormal folic acid level or
HP:0012146 Abnormality of von Willebrand factor.'"

contributors:
- https://orcid.org/0000-0003-4606-0597
- https://orcid.org/0000-0002-9900-7880
- https://orcid.org/0000-0002-3528-5267
- https://orcid.org/0000-0001-5208-3432
- https://orcid.org/0000-0003-4148-4606
- https://orcid.org/0000-0001-7941-2961
- https://orcid.org/0000-0002-7356-1779
- https://orcid.org/0000-0001-9076-6015
- https://orcid.org/0000-0003-4606-0597 # Susan Bello
- https://orcid.org/0000-0002-9900-7880 # Yvonne M. Bradford
- https://orcid.org/0000-0002-3528-5267 # Sofia Robb
- https://orcid.org/0000-0001-5208-3432 # Nicole Vasilevsky
- https://orcid.org/0000-0003-4148-4606 # Midori A. Harris
- https://orcid.org/0000-0001-7941-2961 # Leigh Carmody
- https://orcid.org/0000-0002-7356-1779 # Nicolas Matentzoglu
- https://orcid.org/0000-0001-9076-6015 # Christian A. Grove
- https://orcid.org/0000-0001-8314-2140 # Ray Stefancsik

classes:
amount: PATO:0000070
abnormal: PATO:0000460
chemical entity: CHEBI:24431
anatomical_entity: UBERON:0001062

relations:
inheres_in: RO:0000052
characteristic_of: RO:0000052
has_modifier: RO:0002573
has_part: BFO:0000051
part_of: BFO:0000050

annotationProperties:
exact_synonym: oio:hasExactSynonym
exact_synonym: oio:hasExactSynonym

vars:
chemical_entity: "'chemical entity'"

name:
text: "abnormal %s level"
vars:
- chemical_entity
- chemical_entity


def:
Expand All @@ -40,7 +45,9 @@ def:
- chemical_entity

equivalentTo:
text: "'has_part' some ('amount' and ('inheres_in' some %s) and ('has_modifier' some 'abnormal'))"
text: "'has_part' some 'amount'
and ('characteristic_of' some (%s
and ('part_of' some 'anatomical_entity')))
and ('has_modifier' some 'abnormal')"
vars:
- chemical_entity

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