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Add dislocated anatomical entity pattern template #829

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Jul 8, 2022
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66 changes: 66 additions & 0 deletions src/patterns/dosdp-dev/dislocatedAnatomicalEntity.yaml
Original file line number Diff line number Diff line change
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---
pattern_name: dislocatedAnatomicalEntity

pattern_iri: http://purl.obolibrary.org/obo/upheno/patterns-dev/dislocatedAnatomicalEntity.yaml

description: "Use this phenotype pattern when an anatomical entity developed in
its normal location, but later it is found outside of that original place or
position. Consider the alternative 'mislocalised PATO:0000628' positional
quality pattern when the anatomical entity is found outside of its usual or
proper place, because it developed in the wrong (ectopic) location."

# examples:
# - http://purl.obolibrary.org/obo/HP_0001373 # Joint dislocation
# - http://purl.obolibrary.org/obo/HP_0002827 # Hip dislocation
# - http://purl.obolibrary.org/obo/MP_0030795 # joint dislocation
# - http://purl.obolibrary.org/obo/MP_0030796 # hip dislocation
# - http://purl.obolibrary.org/obo/MP_0030843 # elbow dislocation

contributors:
- https://orcid.org/0000-0001-8314-2140 # Ray Stefancsik
- https://orcid.org/0000-0003-4606-0597 # Susan Bello
- https://orcid.org/0000-0002-7356-1779 # Nicolas Matentzoglu
- https://orcid.org/0000-0002-7073-9172 # David Osumi-Sutherland
- https://orcid.org/0000-0002-6490-7723 # Anna V. Anagnostopoulos

classes:
dislocated: PATO:0001852
abnormal: PATO:0000460
anatomical_entity: UBERON:0001062

relations:
characteristic_of: RO:0000052
has_modifier: RO:0002573
has_part: BFO:0000051

annotationProperties:
exact_synonym: oio:hasExactSynonym

vars:
anatomical_entity: "'anatomical_entity'"

name:
text: "%s dislocation"
vars:
- anatomical_entity

annotations:
- annotationProperty: exact_synonym
text: "dislocation of %s"
vars:
- anatomical_entity

def:
text: "Dislocation or displacement of %s from the place or position where it
developed."
vars:
- anatomical_entity

equivalentTo:
text: "'has_part' some (
'dislocated' and
('characteristic_of' some %s) and
('has_modifier' some 'abnormal'))"
vars:
- anatomical_entity
...