Merge pull request #1752 from obi-ontology/cd8_receptor_353

Obsoleting OBI's CD8 receptor class in favor of PR term
obi-ontology · Nov 30, 2023 · 6a4587e · 6a4587e
2 parents 471ed83 + d15ded3
commit 6a4587e
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Showing 3 changed files with 24 additions and 18 deletions.
diff --git a/src/ontology/modules/obsolete.owl b/src/ontology/modules/obsolete.owl
@@ -76,6 +76,12 @@
 
 
 
+    <!-- http://purl.obolibrary.org/obo/IAO_0000234 -->
+
+    <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000234"/>
+
+
+
     <!-- http://purl.obolibrary.org/obo/IAO_0100001 -->
 
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0100001"/>
@@ -1140,6 +1146,20 @@
 
 
 
+    <!-- http://purl.obolibrary.org/obo/OBI_1110132 -->
+
+    <owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_1110132">
+        <rdfs:subClassOf rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+        <obo:IAO_0000115>A transmembrane glycoprotein that serves as a co-receptor for the T cell receptor.</obo:IAO_0000115>
+        <obo:IAO_0000118>CD8</obo:IAO_0000118>
+        <obo:IAO_0000234>https://github.com/obi-ontology/obi/issues/353</obo:IAO_0000234>
+        <obo:IAO_0100001 rdf:resource="http://purl.obolibrary.org/obo/PR_000025402"/>
+        <rdfs:label>obsolete CD8 receptor</rdfs:label>
+        <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+    </owl:Class>
+
+
+
     <!-- http://purl.obolibrary.org/obo/REO_0000171 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/REO_0000171">

diff --git a/src/ontology/obi-edit.owl b/src/ontology/obi-edit.owl
@@ -31146,7 +31146,7 @@ MHB 3-5-13: Need to review axiom on this class in light of clarification that it
                                         <owl:complementOf>
                                             <owl:Restriction>
                                                 <owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
-                                                <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_1110132"/>
+                                                <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/PR_000025402"/>
                                             </owl:Restriction>
                                         </owl:complementOf>
                                     </owl:Class>
@@ -31185,15 +31185,15 @@ MHB 3-5-13: Need to review axiom on this class in light of clarification that it
                                         <owl:complementOf>
                                             <owl:Restriction>
                                                 <owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
-                                                <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_1110132"/>
+                                                <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/PR_000001004"/>
                                             </owl:Restriction>
                                         </owl:complementOf>
                                     </owl:Class>
                                     <owl:Class>
                                         <owl:complementOf>
                                             <owl:Restriction>
                                                 <owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
-                                                <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/PR_000001004"/>
+                                                <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/PR_000025402"/>
                                             </owl:Restriction>
                                         </owl:complementOf>
                                     </owl:Class>
@@ -31880,21 +31880,6 @@ MHB 3-5-13: Need to review axiom on this class in light of clarification that it
 
 
 
-    <!-- http://purl.obolibrary.org/obo/OBI_1110132 -->
-
-    <owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_1110132">
-        <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/PR_000000001"/>
-        <obo:IAO_0000111>CD8 receptor</obo:IAO_0000111>
-        <obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000121"/>
-        <obo:IAO_0000115>A transmembrane glycoprotein that serves as a co-receptor for the T cell receptor.</obo:IAO_0000115>
-        <obo:IAO_0000116>This term does not belong in ONTIE.  It should be imported from PRO, but there seems to be no appropriate term as of 08/17/2009.</obo:IAO_0000116>
-        <obo:IAO_0000118>CD8</obo:IAO_0000118>
-        <obo:IAO_0000119>WEB: http://en.wikipedia.org/wiki/CD8</obo:IAO_0000119>
-        <rdfs:label>CD8 receptor</rdfs:label>
-    </owl:Class>
-
-
-
     <!-- http://purl.obolibrary.org/obo/OBI_1110182 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_1110182">

diff --git a/src/ontology/templates/obsolete.tsv b/src/ontology/templates/obsolete.tsv
@@ -67,5 +67,6 @@ OBI:0600003	obsolete performing a clinical assessment		metadata complete	clinica
 OBI:0600065	obsolete_defined processes		organizational term			Place holder class, see editor note	OBI branch derived		PlanAndPlannedProcess Branch					subclass	Obsolete Class	true	IAO:0000226		
 OBI:1110002	obsolete_occurrence of disease		metadata incomplete			An occurrence of disease is a process involving pathologic changes within an organism	IEDB		IEDB					subclass	Obsolete Class	true	IAO:0000228		
 OBI:1110055	obsolete_disease		organizational term			placeholder to be imported from disease ontology	IEDB		IEDB					subclass	Obsolete Class	true	IAO:0000228	OGMS:0000031	
+OBI:1110132	obsolete CD8 receptor			CD8		A transmembrane glycoprotein that serves as a co-receptor for the T cell receptor.						https://github.com/obi-ontology/obi/issues/353		subclass	Obsolete Class	true		PR:000025402	
 REO:0000171	obsolete molecular label role		ready for release	molecular tracer role		A reagent role inhering in a molecular entity intended to associate with some molecular target to serve as a proxy for the presence, abundance, or location of this target in a detection of molecular label assay.	OBI developer call, 3-12-12		Group: OBI					subclass	Obsolete Class	true	OBI:0002743		
 REO:0000280	obsolete molecular label		ready for release	molecular tracer		A molecular reagent intended to associate with some molecular target to serve as a proxy for the presence, abundance, or location of this target in a detection of molecular label assay	OBI developer call, 3-12-12		Group: OBI					subclass	Obsolete Class	true	OBI:0002744