Fixes #2240 NTR lipid associated macrophage (#2666)

* Fixes #2240 NTR lipid associated macrophage Fixes #2240 NTR lipid associated macrophage * Add TREM2 expression axiom
obophenotype · Oct 24, 2024 · 581bea0 · 581bea0
1 parent 2eb9a67
commit 581bea0
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Showing 4 changed files with 150 additions and 28 deletions.
diff --git 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))
@@ -3339,7 +3340,7 @@ AnnotationAssertion(rdfs:label obo:IAO_0000115 "definition")
 
 AnnotationAssertion(rdfs:label obo:IAO_0000424 "expand expression to")
 
-# Annotation Property: obo:IAO_0000700 (has ontology root term)
+# Annotation Property: obo:IAO_0000700 (preferred_root)
 
 AnnotationAssertion(rdfs:label obo:IAO_0000700 "preferred_root")
 
@@ -3433,11 +3434,11 @@ 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")
 
@@ -32141,6 +32142,18 @@ 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 <https://orcid.org/0000-0001-6677-8489>)
+AnnotationAssertion(terms:contributor obo:CL_4033086 <https://orcid.org/0000-0001-8134-3037>)
+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)
+SubClassOf(obo:CL_4033086 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000016626))
+
 # 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.")