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obophenotype / upheno

The Unified Phenotype Ontology (uPheno) integrates multiple phenotype ontologies into a unified cross-species phenotype ontology.
https://obophenotype.github.io/upheno/
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review: abnormalDegenerationOfAnatomicalEntity #460

Closed nicolevasilevsky closed 5 years ago

nicolevasilevsky commented 5 years ago

pattern_name: abnormalDegenerationOfAnatomicalEntity pattern_iri: http://purl.obolibrary.org/obo/upheno/patterns-dev/abnormalDegenerationOfAnatomicalEntity.yaml description: "deterioration or loss of function of a tissue that was once present, such as HP_0000546 retinal degeneration."

contributors:

classes: degenerate: PATO:0000639 abnormal: PATO:0000460 anatomical entity: UBERON:0001062

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

annotationProperties: exact_synonym: oio:hasExactSynonym

vars: anatomical_entity: "'anatomical entity'"

name: text: "%s degeneration" vars:

annotations:

def: text: "Partial or complete degeneration of %s tissue that was once present." vars:

equivalentTo: text: "'has_part' some ('degenerate' and ('inheres_in' some %s) and ('has_modifier' some 'abnormal'))" vars:

nicolevasilevsky commented 5 years ago

see: https://docs.google.com/spreadsheets/d/1GlZoh4kSi_xyv-m2obNdrntCg3WtB2bb58kG6w34pZc/edit#gid=1060488792

HPO has degeneration terms involving cells, such as Degeneration of anterior horn cells

Could we make this pattern more inclusive or should we create a new pattern?