From a29c784e45a24f432a87a45e623c01b8c52d4643 Mon Sep 17 00:00:00 2001 From: aleixpuig <94959119+aleixpuigb@users.noreply.github.com> Date: Thu, 17 Oct 2024 13:37:53 +0100 Subject: [PATCH] Fixes #2240 NTR lipid associated macrophage Fixes #2240 NTR lipid associated macrophage --- src/ontology/cl-edit.owl | 20 ++++++++++++++++---- src/ontology/imports/pr_terms.txt | 1 + 2 files changed, 17 insertions(+), 4 deletions(-) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index 8f2a54c78..cb30ae249 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -3038,6 +3038,7 @@ Declaration(Class(obo:CL_4033066)) Declaration(Class(obo:CL_4033067)) Declaration(Class(obo:CL_4033083)) Declaration(Class(obo:CL_4033084)) +Declaration(Class(obo:CL_4033086)) Declaration(Class(obo:CL_4040000)) Declaration(Class(obo:CL_4040001)) Declaration(Class(obo:CL_4040002)) @@ -3331,7 +3332,7 @@ AnnotationAssertion(rdfs:label obo:IAO_0000115 "definition") AnnotationAssertion(rdfs:label obo:IAO_0000424 "expand expression to") -# Annotation Property: obo:IAO_0000700 (preferred_root) +# Annotation Property: obo:IAO_0000700 (has ontology root term) AnnotationAssertion(rdfs:label obo:IAO_0000700 "preferred_root") @@ -3425,11 +3426,11 @@ AnnotationAssertion(rdfs:label oboInOwl:hasBroadSynonym "has_broad_synonym") AnnotationAssertion(rdfs:label oboInOwl:hasDbXref "database_cross_reference") -# Annotation Property: oboInOwl:hasExactSynonym (has_exact_synonym) +# Annotation Property: oboInOwl:hasExactSynonym (has exact synonym) AnnotationAssertion(rdfs:label oboInOwl:hasExactSynonym "has_exact_synonym") -# Annotation Property: oboInOwl:hasNarrowSynonym (has_narrow_synonym) +# Annotation Property: oboInOwl:hasNarrowSynonym (has narrow synonym) AnnotationAssertion(rdfs:label oboInOwl:hasNarrowSynonym "has_narrow_synonym") @@ -27999,8 +28000,8 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "HPA:HPA") Annotation(oboInOwl AnnotationAssertion(oboInOwl:hasDbXref obo:CL_1001591 "CALOHA:TS-1277") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "CALOHA:TS-1277") oboInOwl:hasRelatedSynonym obo:CL_1001591 "fallopian tube glandular cell") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "CALOHA:TS-1277") oboInOwl:hasRelatedSynonym obo:CL_1001591 "fallopian tube glandular cells") -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "CALOHA:TS-1277") oboInOwl:hasRelatedSynonym obo:CL_1001591 "uterine tube glandular cell") AnnotationAssertion(oboInOwl:hasRelatedSynonym obo:CL_1001591 "oviduct glandular cell") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "CALOHA:TS-1277") oboInOwl:hasRelatedSynonym obo:CL_1001591 "uterine tube glandular cell") AnnotationAssertion(rdfs:label obo:CL_1001591 "oviduct secretory cell") EquivalentClasses(obo:CL_1001591 ObjectIntersectionOf(obo:CL_1100001 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0000993))) SubClassOf(obo:CL_1001591 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0004804)) @@ -32133,6 +32134,17 @@ SubClassOf(obo:CL_4033084 obo:CL_0000501) SubClassOf(obo:CL_4033084 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001305)) SubClassOf(obo:CL_4033084 ObjectSomeValuesFrom(obo:RO_0002207 obo:CL_4033083)) +# Class: obo:CL_4033086 (lipid-associated macrophage) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31257031") Annotation(oboInOwl:hasDbXref "PMID:34876704") Annotation(oboInOwl:hasDbXref "PMID:35712121") obo:IAO_0000115 obo:CL_4033086 "A tissue-resident macrophage that is associated with lipids. This cell responsible of anti-inflammatory functions, lipid accumulation and enhancing phagocytosis (Wculek et al., 2022, Liu et al., 2022). In mice and humans, a lipid-associated macrophage is characterized by the marker Trem2 (Jaitlin et al., 2019).") +AnnotationAssertion(terms:contributor obo:CL_4033086 ) +AnnotationAssertion(terms:contributor obo:CL_4033086 ) +AnnotationAssertion(terms:date obo:CL_4033086 "2024-10-17T10:20:13Z"^^xsd:dateTime) +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31257031") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4033086 "LAM") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:35021063") Annotation(oboInOwl:hasDbXref "PMID:37153549") rdfs:comment obo:CL_4033086 "Distinct from “adipose macrophage” in Trem2 expression, and is not limited to adipose tissue. Guilliams et al. describe these cells as being distinct from Kupffer cells.") +AnnotationAssertion(rdfs:label obo:CL_4033086 "lipid-associated macrophage") +SubClassOf(obo:CL_4033086 obo:CL_0000235) + # Class: obo:CL_4040000 (glial restricted tripotential precursor cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:10719353") obo:IAO_0000115 obo:CL_4040000 "A glial precursor cell that generates oligodendrocytes and type-1 and type-2 astrocytes. It has been shown in some mammals that this cell type may express A2B5, nestin, FGFR-1, FGFR-2, FGFR-3, PLP, and DM-20 antigens. Unlike oligodendrocyte precursor cell, it does not initially express PDGFR-alpha and can differentiate into both type-1 and type-2 astrocytes.") diff --git a/src/ontology/imports/pr_terms.txt b/src/ontology/imports/pr_terms.txt index 7b765ffd9..07b9e5b14 100644 --- a/src/ontology/imports/pr_terms.txt +++ b/src/ontology/imports/pr_terms.txt @@ -46,3 +46,4 @@ PR:000014898 PR:000007643 PR:000004691 PR:000013047 +PR:000016626 \ No newline at end of file