From b60dc2ea4e53f02dd0e3d83bf3f34264ca0c028a Mon Sep 17 00:00:00 2001 From: Jasmine Belfiore <166385424+JABelfiore@users.noreply.github.com> Date: Fri, 27 Sep 2024 18:26:05 +0100 Subject: [PATCH] NTR liver resident NK cells (#2472) * NTR liver resident NK cells * equivalent class axiom added liver-resident NK cell * synonyms added * Some tweaks to def based on review (added as ref) * Tweaks to taxon restriction to ensure passing tests --------- Co-authored-by: David Osumi-Sutherland Co-authored-by: Alida Avola <81253886+AvolaAmg@users.noreply.github.com> --- src/ontology/cl-edit.owl | 19 +++++++++++++++++++ src/ontology/components/hra_subset.owl | 4 ++-- 2 files changed, 21 insertions(+), 2 deletions(-) diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index b52c60fde..0b91d5306 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -3079,6 +3079,7 @@ Declaration(Class(obo:CL_4047018)) Declaration(Class(obo:CL_4047019)) Declaration(Class(obo:CL_4047051)) Declaration(Class(obo:CL_4047052)) +Declaration(Class(obo:CL_4047101)) Declaration(Class(obo:CL_4052001)) Declaration(Class(obo:CL_4052002)) Declaration(Class(obo:CL_4052003)) @@ -32577,6 +32578,24 @@ AnnotationAssertion(terms:date obo:CL_4047052 "2024-07-25T13:21:19Z"^^xsd:dateTi AnnotationAssertion(rdfs:label obo:CL_4047052 "BEST4+ colonocyte") EquivalentClasses(obo:CL_4047052 ObjectIntersectionOf(obo:CL_1000347 ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_Q8NFU0))) +# Class: obo:CL_4047101 (liver-resident natural killer cell) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:26330348") Annotation(oboInOwl:hasDbXref "PMID:26639736") Annotation(oboInOwl:hasDbXref "PMID:27798170") Annotation(oboInOwl:hasDbXref "PMID:32351704") Annotation(oboInOwl:hasDbXref "PMID:34230995") Annotation(oboInOwl:hasDbXref "PMID:35865550") Annotation(oboInOwl:hasDbXref "PMID:31114585") obo:IAO_0000115 obo:CL_4047101 "A natural killer cell resident to the liver, located in the hepatic sinusoids. In humans this cell type is distinguished from circulating natural killer cells by CD49a or CD69 gene expression. Liver-resident natural killer cells have also been shown to express CCR5, EOMES, KLRB1, GZMK, and CXCR6 in humans.") +AnnotationAssertion(terms:contributor obo:CL_4047101 ) +AnnotationAssertion(terms:contributor obo:CL_4047101 "https://orcid.org/0000-0001-8134-3037") +AnnotationAssertion(terms:date obo:CL_4047101 "2024-07-29T13:43:11Z"^^xsd:dateTime) +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31114585") oboInOwl:hasExactSynonym obo:CL_4047101 "he-NK") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.3389/fimmu.2019.00946") oboInOwl:hasExactSynonym obo:CL_4047101 "hepatic NK") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.3389/fimmu.2019.00946") oboInOwl:hasExactSynonym obo:CL_4047101 "hepatic natural killer cells") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:33828559") oboInOwl:hasExactSynonym obo:CL_4047101 "intrahepatic NK") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:26639736") oboInOwl:hasExactSynonym obo:CL_4047101 "liver NK cell") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:26330348") oboInOwl:hasExactSynonym obo:CL_4047101 "liver resident natural killer cell") +AnnotationAssertion(oboInOwl:hasExactSynonym obo:CL_4047101 "liver-specific natural killer cell") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:35726345") oboInOwl:hasExactSynonym obo:CL_4047101 "lr-NK") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:34230995") rdfs:comment obo:CL_4047101 "Liver-resident natural killer cells play a crucial role in modulating the immune response during inflammation by balancing cytotoxic activity and cytokine production, thereby contributing to the maintenance of liver homeostasis and protection against excessive tissue damage.") +AnnotationAssertion(rdfs:label obo:CL_4047101 "liver-resident natural killer cell") +EquivalentClasses(obo:CL_4047101 ObjectIntersectionOf(obo:CL_0000623 ObjectSomeValuesFrom(obo:RO_0001025 obo:UBERON_0001281))) + # Class: obo:CL_4052001 (multiciliated ependymal cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25045600") Annotation(oboInOwl:hasDbXref "PMID:28067220") Annotation(oboInOwl:hasDbXref "PMID:37008045") obo:IAO_0000115 obo:CL_4052001 "An ependymal cell that lines the lateral, third, and fourth ventricles of the brain. The cell is characterized by multiple motile cilia on its apical surface, which beats in a coordinated manner to facilitate the movement of cerebrospinal fluid (CSF), contributing to brain homeostasis.") diff --git a/src/ontology/components/hra_subset.owl b/src/ontology/components/hra_subset.owl index 83e5a401c..9adfdda14 100644 --- a/src/ontology/components/hra_subset.owl +++ b/src/ontology/components/hra_subset.owl @@ -3694,7 +3694,7 @@ - + @@ -4502,5 +4502,5 @@ - +