add new subclases of 'Abnormal proportion of naive T cells'. Addresses …

…#4289
obophenotype · Apr 5, 2019 · 4610eff · 4610eff
1 parent 7cdc863
commit 4610eff
Showing 1 changed file with 58 additions and 10 deletions.
diff --git a/src/ontology/hp-edit.owl b/src/ontology/hp-edit.owl
@@ -8,16 +8,16 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/hp.owl>
-Import(<http://purl.obolibrary.org/obo/hp/imports/ro_import.owl>)
-Import(<http://purl.obolibrary.org/obo/hp/imports/mpath_import.owl>)
-Import(<http://purl.obolibrary.org/obo/hp/imports/pato_import.owl>)
-Import(<http://purl.obolibrary.org/obo/hp/imports/nbo_import.owl>)
 Import(<http://purl.obolibrary.org/obo/hp/imports/chebi_import.owl>)
-Import(<http://purl.obolibrary.org/obo/hp/imports/pr_import.owl>)
 Import(<http://purl.obolibrary.org/obo/hp/imports/cl_import.owl>)
 Import(<http://purl.obolibrary.org/obo/hp/imports/go_import.owl>)
-Import(<http://purl.obolibrary.org/obo/hp/imports/uberon_import.owl>)
 Import(<http://purl.obolibrary.org/obo/hp/imports/hsapdv_import.owl>)
+Import(<http://purl.obolibrary.org/obo/hp/imports/mpath_import.owl>)
+Import(<http://purl.obolibrary.org/obo/hp/imports/nbo_import.owl>)
+Import(<http://purl.obolibrary.org/obo/hp/imports/pato_import.owl>)
+Import(<http://purl.obolibrary.org/obo/hp/imports/pr_import.owl>)
+Import(<http://purl.obolibrary.org/obo/hp/imports/ro_import.owl>)
+Import(<http://purl.obolibrary.org/obo/hp/imports/uberon_import.owl>)
 Annotation(dc:creator "Human Phenotype Ontology Consortium")
 Annotation(dc:creator "Monarch Initiative")
 Annotation(dc:creator "Peter Robinson")
@@ -14259,6 +14259,12 @@ Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410366>))
 Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410368>))
 Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410370>))
 Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410372>))
+Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410373>))
+Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410374>))
+Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410375>))
+Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410376>))
+Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410377>))
+Declaration(Class(<http://purl.obolibrary.org/obo/HP_0410378>))
 Declaration(Class(<http://purl.obolibrary.org/obo/HP_0430000>))
 Declaration(Class(<http://purl.obolibrary.org/obo/HP_0430002>))
 Declaration(Class(<http://purl.obolibrary.org/obo/HP_0430003>))
@@ -117118,7 +117124,7 @@ AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <ht
 AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "ORCID:0000-0002-6548-5200") Annotation(<http://www.geneontology.org/formats/oboInOwl#hasSynonymType> <http://purl.obolibrary.org/obo/hp.owl#layperson>) <http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/HP_0011002> "Harder, denser, fracture-prone bones")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasOBONamespace> <http://purl.obolibrary.org/obo/HP_0011002> "human_phenotype"^^xsd:string)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/HP_0011002> "Albers-Schoenberg disease"^^xsd:string)
-AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/HP_0011002> "Albers-Schonberg disease")
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/HP_0011002> "Albers-Schonberg disease"^^xsd:string)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/HP_0011002> "Albers-Schönberg disease")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/HP_0011002> "Marble bone disease"^^xsd:string)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/HP_0011002> "HP:0011002"^^xsd:string)
@@ -159186,7 +159192,6 @@ AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#has
 AnnotationAssertion(dc:date <http://purl.obolibrary.org/obo/HP_0031396> "2017-09-03T12:46:29Z"^^xsd:dateTime)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0031396> "peter"^^xsd:string)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/HP_0031396> "Abnormal naive T cell proportion")
-AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/HP_0031396> "Abnormal proportion of CD4+CD45RA+ cells")
 AnnotationAssertion(rdfs:comment <http://purl.obolibrary.org/obo/HP_0031396> "Following the development of T cells in the thymus, they enter the blood stream and recirculate between the blood and peripheral lymphatic tissues. Mature recirculating T cells that have not yet encountered their specific antigen are known as naive T cells. Mature T cell not yet exposed to antigen with the phenotype CCR7-positive, CD45RA-positive, and CD127-positive. This cell type is also described as being CD25-negative, CD62L-high and CD44-low. Human mature CD4+ T cells are functionally heterogeneous and can be divided into naive and memory/effector populations based on the expression of cell surface markers. Although the most significant differences between these two populations are functional, the leukocyte common Ag (CD45) was promoted as a potential marker of memory T cells. CD45 Ag may be found in various isoforms depending on alternative splicing of three extracellularly expressed exons. The expression of the highest molecular weight isoform, referred to as CD45RA, defines the population of CD4+ unprimed lymphocytes. Activation of naive lymphocytes through TCR engagement is followed by loss of CD45RA Ag and transition to the expression of the smallest molecular weight isoform CD45RO. These primed cells express high levels of activation Ags, acquire effector functions, and need less costimuli requirements for further activation.")
 AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0031396> "Abnormal proportion of naive T cells")
 SubClassOf(<http://purl.obolibrary.org/obo/HP_0031396> <http://purl.obolibrary.org/obo/HP_0025540>)
@@ -159196,7 +159201,6 @@ SubClassOf(<http://purl.obolibrary.org/obo/HP_0031396> <http://purl.obolibrary.o
 AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "HPO:probinson"^^xsd:string) Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "PMID:12133935") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/HP_0031397> "An abnormally decreased proportion of naive T cells relative to the total number of T cells.")
 AnnotationAssertion(dc:date <http://purl.obolibrary.org/obo/HP_0031397> "2017-09-03T12:53:09Z"^^xsd:dateTime)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0031397> "peter"^^xsd:string)
-AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/HP_0031397> "Decreased proportion of CD4+CD45RA+ cells")
 AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0031397> "Reduced proportion of naive T cells")
 SubClassOf(<http://purl.obolibrary.org/obo/HP_0031397> <http://purl.obolibrary.org/obo/HP_0031396>)
 
@@ -159205,7 +159209,6 @@ SubClassOf(<http://purl.obolibrary.org/obo/HP_0031397> <http://purl.obolibrary.o
 AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "PMID:12133935") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/HP_0031398> "An abnormally increased proportion of naive T cells relative to the total number of T cells.")
 AnnotationAssertion(dc:date <http://purl.obolibrary.org/obo/HP_0031398> "2017-09-03T12:53:42Z"^^xsd:dateTime)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0031398> "peter"^^xsd:string)
-AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym> <http://purl.obolibrary.org/obo/HP_0031398> "Increased proportion of CD4+CD45RA+ cells")
 AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0031398> "Elevated proportion of naive T cells")
 SubClassOf(<http://purl.obolibrary.org/obo/HP_0031398> <http://purl.obolibrary.org/obo/HP_0031396>)
 
@@ -188174,6 +188177,51 @@ AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynony
 AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0410372> "Increased Tn-antigen level")
 SubClassOf(<http://purl.obolibrary.org/obo/HP_0410372> <http://purl.obolibrary.org/obo/HP_0012358>)
 
+# Class: <http://purl.obolibrary.org/obo/HP_0410373> (Abnormal proportion of naive CD4 T cells)
+
+AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "PMID:22474485") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/HP_0410373> "Any abnormality in the proportion of naive CD4 T cells relative to the total number of T cells.")
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0410373> <http://orcid.org/0000-0001-5208-3432>)
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/HP_0410373> "Abnormal proportion of CD4+CD45RA+ cells")
+AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0410373> "Abnormal proportion of naive CD4 T cells")
+SubClassOf(<http://purl.obolibrary.org/obo/HP_0410373> <http://purl.obolibrary.org/obo/HP_0031396>)
+
+# Class: <http://purl.obolibrary.org/obo/HP_0410374> (Abnormal proportion of naive CD8 T cells)
+
+AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "PMID:26700072") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/HP_0410374> "Any abnormality in the proportion of naive CD8 T cells relative to the total number of T cells.")
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0410374> <http://orcid.org/0000-0001-5208-3432>)
+AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0410374> "Abnormal proportion of naive CD8 T cells")
+SubClassOf(<http://purl.obolibrary.org/obo/HP_0410374> <http://purl.obolibrary.org/obo/HP_0031396>)
+
+# Class: <http://purl.obolibrary.org/obo/HP_0410375> (Elevated proportion of naive CD4 T cells)
+
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0410375> <http://orcid.org/0000-0001-5208-3432>)
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/HP_0410375> "Increased proportion of CD4+CD45RA+ cells")
+AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "PMID:22474485") rdfs:comment <http://purl.obolibrary.org/obo/HP_0410375> "An abnormally increased proportion of naive CD4 T cells relative to the total number of T cells.")
+AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0410375> "Elevated proportion of naive CD4 T cells")
+SubClassOf(<http://purl.obolibrary.org/obo/HP_0410375> <http://purl.obolibrary.org/obo/HP_0031398>)
+
+# Class: <http://purl.obolibrary.org/obo/HP_0410376> (Elevated proportion of naive CD8 T cells)
+
+AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "PMID:26700072") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/HP_0410376> "An abnormally increased proportion of naive CD8 T cells relative to the total number of T cells.")
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0410376> <http://orcid.org/0000-0001-5208-3432>)
+AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0410376> "Elevated proportion of naive CD8 T cells")
+SubClassOf(<http://purl.obolibrary.org/obo/HP_0410376> <http://purl.obolibrary.org/obo/HP_0031398>)
+
+# Class: <http://purl.obolibrary.org/obo/HP_0410377> (Reduced proportion of naive CD8 T cells)
+
+AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "PMID:26700072") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/HP_0410377> "An abnormally reduced proportion of naive CD8 T cells relative to the total number of T cells.")
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0410377> <http://orcid.org/0000-0001-5208-3432>)
+AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0410377> "Reduced proportion of naive CD8 T cells")
+SubClassOf(<http://purl.obolibrary.org/obo/HP_0410377> <http://purl.obolibrary.org/obo/HP_0031397>)
+
+# Class: <http://purl.obolibrary.org/obo/HP_0410378> (Reduced proportion of naive CD4 T cells)
+
+AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "PMID:22474485") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/HP_0410378> "An abnormally reduced proportion of naive CD4 T cells relative to the total number of T cells.")
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#created_by> <http://purl.obolibrary.org/obo/HP_0410378> <http://orcid.org/0000-0001-5208-3432>)
+AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/HP_0410378> "Decreased proportion of CD4+CD45RA+ cells")
+AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/HP_0410378> "Reduced proportion of naive CD4 T cells")
+SubClassOf(<http://purl.obolibrary.org/obo/HP_0410378> <http://purl.obolibrary.org/obo/HP_0031397>)
+
 # Class: <http://purl.obolibrary.org/obo/HP_0430000> (Abnormality of the frontal bone)
 
 AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "GOC:MG") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/HP_0430000> "An abnormality of the frontal bone.")