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Addresses #2786 NTR CD57-positive enterocyte #2847

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merged 5 commits into from
Dec 20, 2024
Merged

Addresses #2786 NTR CD57-positive enterocyte #2847

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61aec8e
Addresses #2786 NTR CD57-positive enterocyte
aleixpuigb Dec 6, 2024
97e3821
Merge branch 'master' into 2786_NTR_CD57_enterocyte
Caroline-99 Dec 16, 2024
f033076
Merge branch 'master' into 2786_NTR_CD57_enterocyte
aleixpuigb Dec 18, 2024
2bbaf27
Merge branch 'master' into 2786_NTR_CD57_enterocyte
Caroline-99 Dec 19, 2024
a41b29e
Fixes typo
aleixpuigb Dec 20, 2024
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24 changes: 12 additions & 12 deletions src/mappings/fbbt.sssom.tsv
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Original file line number Diff line number Diff line change
@@ -1,17 +1,17 @@
#curie_map:
# CL: "http://purl.obolibrary.org/obo/CL_"
# FBbt: "http://purl.obolibrary.org/obo/FBbt_"
# ORCID: "https://orcid.org/"
# obo: "http://purl.obolibrary.org/obo/"
#mapping_set_id: "http://purl.obolibrary.org/obo/fbbt/fbbt-mappings.sssom.tsv"
#mapping_set_description: "Mappings between the Drosophila Anatomy Ontology and foreign ontologies."
# CL: http://purl.obolibrary.org/obo/CL_
# FBbt: http://purl.obolibrary.org/obo/FBbt_
# ORCID: https://orcid.org/
# obo: http://purl.obolibrary.org/obo/
#mapping_set_id: http://purl.obolibrary.org/obo/fbbt/fbbt-mappings.sssom.tsv
#mapping_set_description: Mappings between the Drosophila Anatomy Ontology and foreign ontologies.
#creator_id:
# - "ORCID:0000-0002-1373-1705"
# - "ORCID:0000-0002-6095-8718"
#license: "https://creativecommons.org/licenses/by/4.0/"
#subject_source: "obo:fbbt.owl"
#object_source: "obo:cl.owl"
#mapping_date: "2024-07-12"
# - ORCID:0000-0002-1373-1705
# - ORCID:0000-0002-6095-8718
#license: https://creativecommons.org/licenses/by/4.0/
#subject_source: obo:fbbt.owl
#object_source: obo:cl.owl
#mapping_date: 2024-07-12
subject_id subject_label predicate_id object_id object_label mapping_justification
FBbt:00000092 primordial germ cell semapv:crossSpeciesExactMatch CL:0000301 pole cell semapv:ManualMappingCuration
FBbt:00000124 epithelial cell semapv:crossSpeciesExactMatch CL:0000066 epithelial cell semapv:ManualMappingCuration
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14 changes: 7 additions & 7 deletions src/mappings/zfa.sssom.tsv
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Original file line number Diff line number Diff line change
@@ -1,10 +1,10 @@
#curie_map:
# CL: "http://purl.obolibrary.org/obo/CL_"
# ZFA: "http://purl.obolibrary.org/obo/ZFA_"
#mapping_set_id: "http://purl.obolibrary.org/obo/zfa/zfa.sssom.tsv"
#license: "https://creativecommons.org/licenses/by/3.0/"
#subject_source: "http://purl.obolibrary.org/obo/zfa.owl"
#object_source: "http://purl.obolibrary.org/obo/cl.owl"
# CL: http://purl.obolibrary.org/obo/CL_
# ZFA: http://purl.obolibrary.org/obo/ZFA_
#mapping_set_id: http://purl.obolibrary.org/obo/zfa/zfa.sssom.tsv
#license: https://creativecommons.org/licenses/by/3.0/
#subject_source: http://purl.obolibrary.org/obo/zfa.owl
#object_source: http://purl.obolibrary.org/obo/cl.owl
subject_id subject_label predicate_id object_id object_label mapping_justification
ZFA:0000003 adaxial cell semapv:crossSpeciesExactMatch CL:0007016 adaxial cell semapv:UnspecifiedMatching
ZFA:0000084 yolk semapv:crossSpeciesExactMatch CL:0000428 yolk cell semapv:UnspecifiedMatching
Expand All @@ -20,7 +20,7 @@ ZFA:0005238 juxtaglomerular cell semapv:crossSpeciesExactMatch CL:0000648 kidney
ZFA:0005239 micropylar cell semapv:crossSpeciesExactMatch CL:0007022 micropylar cell semapv:UnspecifiedMatching
ZFA:0005240 Kolmer-Agduhr neuron semapv:crossSpeciesExactMatch CL:0005007 Kolmer-Agduhr neuron semapv:UnspecifiedMatching
ZFA:0005241 polychromatophilic erythroblast semapv:crossSpeciesExactMatch CL:0000550 polychromatophilic erythroblast semapv:UnspecifiedMatching
ZFA:0005242 multi-ciliated epithelial cell semapv:crossSpeciesExactMatch CL:0005012 multi-ciliated epithelial cell semapv:UnspecifiedMatching
ZFA:0005242 multi-ciliated epithelial cell semapv:crossSpeciesExactMatch CL:0005012 multiciliated epithelial cell semapv:UnspecifiedMatching
ZFA:0005243 single ciliated epithelial cell semapv:crossSpeciesExactMatch CL:0005013 single ciliated epithelial cell semapv:UnspecifiedMatching
ZFA:0005244 auditory epithelial support cell semapv:crossSpeciesExactMatch CL:0005014 auditory epithelial supporting cell semapv:UnspecifiedMatching
ZFA:0005245 xanthoblast semapv:crossSpeciesExactMatch CL:0005002 xanthoblast semapv:UnspecifiedMatching
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21 changes: 17 additions & 4 deletions src/ontology/cl-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -3045,6 +3045,7 @@ Declaration(Class(obo:CL_4033088))
Declaration(Class(obo:CL_4033089))
Declaration(Class(obo:CL_4033090))
Declaration(Class(obo:CL_4033091))
Declaration(Class(obo:CL_4033092))
Declaration(Class(obo:CL_4033093))
Declaration(Class(obo:CL_4040000))
Declaration(Class(obo:CL_4040001))
Expand Down Expand Up @@ -3381,7 +3382,7 @@ 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")

Expand Down Expand Up @@ -3467,15 +3468,15 @@ AnnotationAssertion(rdfs:label oboInOwl:consider "consider")

AnnotationAssertion(rdfs:label oboInOwl:hasBroadSynonym "has_broad_synonym")

# Annotation Property: oboInOwl:hasDbXref (database_cross_reference)
# Annotation Property: oboInOwl:hasDbXref (has cross-reference)

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")

Expand Down Expand Up @@ -32366,6 +32367,18 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37124720") oboInOwl:hasE
AnnotationAssertion(rdfs:label obo:CL_4033091 "glycinergic-GABAergic amacrine cell")
EquivalentClasses(obo:CL_4033091 ObjectIntersectionOf(obo:CL_0000561 ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061534) ObjectSomeValuesFrom(obo:RO_0002215 obo:GO_0061537)))

# Class: obo:CL_4033092 (CD57-positive enterocyte)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37468586") obo:IAO_0000115 obo:CL_4033092 "An enterocyte that is part of a duodenal epithelium and expresses beta-1,3-glucuronyltransferase 1 (B3GAT1), also known as CD57 or HNK-1.")
AnnotationAssertion(terms:contributor obo:CL_4033092 <https://orcid.org/0000-0001-6677-8489>)
AnnotationAssertion(terms:contributor obo:CL_4033092 <https://orcid.org/0000-0001-7655-4833>)
AnnotationAssertion(terms:contributor obo:CL_4033092 <https://orcid.org/0000-0001-9961-7673>)
AnnotationAssertion(terms:date obo:CL_4033092 "2024-12-06T14:32:49Z"^^xsd:dateTime)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37468586") oboInOwl:hasExactSynonym obo:CL_4033092 "CD57+ enterocyte")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:37468586") rdfs:comment obo:CL_4033092 "While CD57 is traditionally associated with immune cells (e.g., NK cells), its expression on enterocytes marks unique epithelial subsets with specific functions or maturation states. These cells are specially enriched in areas of the duodenum within submucosal glands.")
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AnnotationAssertion(rdfs:label obo:CL_4033092 "CD57-positive enterocyte")
EquivalentClasses(obo:CL_4033092 ObjectIntersectionOf(obo:CL_0000584 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0008346) ObjectSomeValuesFrom(obo:RO_0002292 obo:PR_000001440)))

# Class: obo:CL_4033093 (limbal epithelial stem cell of cornea)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:20614614") Annotation(oboInOwl:hasDbXref "PMID:29105366") Annotation(oboInOwl:hasDbXref "PMID:36983561") Annotation(oboInOwl:hasDbXref "PMID:37768272") obo:IAO_0000115 obo:CL_4033093 "A stem cell that is part of the corneo-scleral limbus. This cell type resides at the basal layer of the epithelium and has a small size and high nuclear to cytoplasmatic ratio (Secker and Daniels, 2009). A limbal stem cell is responsible for corneal epithelial renewal and repair (Li et al., 2023), and to help maintain a clear corneal surface by preventing conjunctival epithelial cells from migrating onto the cornea (Wang et al., 2023).")
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