Merge pull request #11 from Cellular-Semantics/fix-in_taxon-links-in-…

…quickgo-templates Fix in_taxon links in QuickGO templates
Cellular-Semantics · Nov 29, 2024 · baf1764 · baf1764
2 parents f31965c + bcc5589
commit baf1764
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Showing 33 changed files with 209,407 additions and 230,013 deletions.
diff --git a/clm-base.json b/clm-base.json
@@ -16,9 +16,9 @@
         "val" : "Cell Markers Ontology"
       }, {
         "pred" : "http://www.w3.org/2002/07/owl#versionInfo",
-        "val" : "2024-11-19"
+        "val" : "2024-11-29"
       } ],
-      "version" : "http://purl.obolibrary.org/obo/clm/releases/2024-11-19/clm-base.json"
+      "version" : "http://purl.obolibrary.org/obo/clm/releases/2024-11-29/clm-base.json"
     },
     "nodes" : [ {
       "id" : "http://identifiers.org/ensembl/ENSG00000006128",

diff --git a/clm-base.obo b/clm-base.obo
@@ -1,5 +1,5 @@
 format-version: 1.2
-data-version: clm/releases/2024-11-19/clm-base.owl
+data-version: clm/releases/2024-11-29/clm-base.owl
 idspace: dce http://purl.org/dc/elements/1.1/ 
 idspace: dcterms http://purl.org/dc/terms/ 
 idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# 
@@ -8,7 +8,7 @@ property_value: dce:type IAO:8000001
 property_value: dcterms:description "None" xsd:string
 property_value: dcterms:license https://creativecommons.org/licenses/unspecified
 property_value: dcterms:title "Cell Markers Ontology" xsd:string
-property_value: owl:versionInfo "2024-11-19" xsd:string
+property_value: owl:versionInfo "2024-11-29" xsd:string
 
 [Term]
 id: CL:0000583

diff --git a/clm-base.owl b/clm-base.owl
@@ -11,12 +11,12 @@
      xmlns:dcterms="http://purl.org/dc/terms/"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/clm/clm-base.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/clm/releases/2024-11-19/clm-base.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/clm/releases/2024-11-29/clm-base.owl"/>
         <dce:type rdf:resource="http://purl.obolibrary.org/obo/IAO_8000001"/>
         <dcterms:description>None</dcterms:description>
         <dcterms:license rdf:resource="https://creativecommons.org/licenses/unspecified"/>
         <dcterms:title>Cell Markers Ontology</dcterms:title>
-        <owl:versionInfo>2024-11-19</owl:versionInfo>
+        <owl:versionInfo>2024-11-29</owl:versionInfo>
     </owl:Ontology>
 
 

diff --git a/clm-cl.json b/clm-cl.json
@@ -899,10 +899,10 @@
           },
           {
             "pred": "http://www.w3.org/2002/07/owl#versionInfo",
-            "val": "2024-11-19"
+            "val": "2024-11-29"
           }
         ],
-        "version": "http://purl.obolibrary.org/obo/clm/releases/2024-11-19/clm-cl.json"
+        "version": "http://purl.obolibrary.org/obo/clm/releases/2024-11-29/clm-cl.json"
       },
       "nodes": [
         {

diff --git a/clm-cl.obo b/clm-cl.obo
@@ -1,5 +1,5 @@
 format-version: 1.2
-data-version: clm/releases/2024-11-19/clm-cl.owl
+data-version: clm/releases/2024-11-29/clm-cl.owl
 idspace: dce http://purl.org/dc/elements/1.1/ 
 idspace: dcterms http://purl.org/dc/terms/ 
 idspace: oboInOwl http://www.geneontology.org/formats/oboInOwl# 
@@ -8,7 +8,7 @@ property_value: dce:type IAO:8000001
 property_value: dcterms:description "None" xsd:string
 property_value: dcterms:license https://creativecommons.org/licenses/unspecified
 property_value: dcterms:title "Cell Markers Ontology" xsd:string
-property_value: owl:versionInfo "2024-11-19" xsd:string
+property_value: owl:versionInfo "2024-11-29" xsd:string
 
 [Term]
 id: CL:0000583

diff --git a/clm-cl.owl b/clm-cl.owl
@@ -11,12 +11,12 @@
      xmlns:dcterms="http://purl.org/dc/terms/"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/clm/clm-cl.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/clm/releases/2024-11-19/clm-cl.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/clm/releases/2024-11-29/clm-cl.owl"/>
         <dce:type rdf:resource="http://purl.obolibrary.org/obo/IAO_8000001"/>
         <dcterms:description>None</dcterms:description>
         <dcterms:license rdf:resource="https://creativecommons.org/licenses/unspecified"/>
         <dcterms:title>Cell Markers Ontology</dcterms:title>
-        <owl:versionInfo>2024-11-19</owl:versionInfo>
+        <owl:versionInfo>2024-11-29</owl:versionInfo>
     </owl:Ontology>
 
 

diff --git a/clm-full.json b/clm-full.json
@@ -13,9 +13,9 @@
         "val" : "Cell Markers Ontology"
       }, {
         "pred" : "http://www.w3.org/2002/07/owl#versionInfo",
-        "val" : "2024-11-19"
+        "val" : "2024-11-29"
       } ],
-      "version" : "http://purl.obolibrary.org/obo/clm/releases/2024-11-19/clm-full.json"
+      "version" : "http://purl.obolibrary.org/obo/clm/releases/2024-11-29/clm-full.json"
     },
     "nodes" : [ {
       "id" : "http://identifiers.org/ensembl/ENSG00000006128",
@@ -51948,6 +51948,8 @@
       "meta" : {
         "xrefs" : [ {
           "val" : "GC_ID:1"
+        }, {
+          "val" : "PMID:38895705"
         } ]
       }
     }, {
@@ -52590,6 +52592,8 @@
       "meta" : {
         "xrefs" : [ {
           "val" : "GC_ID:1"
+        }, {
+          "val" : "PMID:38895705"
         } ]
       }
     }, {
@@ -52599,6 +52603,8 @@
       "meta" : {
         "xrefs" : [ {
           "val" : "GC_ID:1"
+        }, {
+          "val" : "PMID:38895705"
         } ]
       }
     }, {
@@ -54189,8 +54195,6 @@
           "val" : "Wikipedia:Head"
         }, {
           "val" : "XAO:0003024"
-        }, {
-          "val" : "ZFA:0001114"
         }, {
           "val" : "galen:Head"
         } ]
@@ -59533,10 +59537,6 @@
           "val" : "VHOG:0001248"
         }, {
           "val" : "Wikipedia:Circulatory_system"
-        } ],
-        "basicPropertyValues" : [ {
-          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
-          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
         } ]
       }
     }, {
@@ -71596,8 +71596,6 @@
           "val" : "SCTID:361348008"
         }, {
           "val" : "TAO:0001438"
-        }, {
-          "val" : "ZFA:0001438"
         }, {
           "val" : "galen:BodyCavity"
         } ]
@@ -76925,6 +76923,10 @@
           "val" : "MA:0003218"
         }, {
           "val" : "SCTID:362167003"
+        } ],
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
+          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
         } ]
       }
     }, {
@@ -82661,10 +82663,6 @@
           "val" : "SCTID:362030008"
         }, {
           "val" : "VHOG:0000273"
-        } ],
-        "basicPropertyValues" : [ {
-          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
-          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
         } ]
       }
     }, {
@@ -82726,10 +82724,6 @@
           "val" : "SCTID:362060003"
         }, {
           "val" : "VHOG:0000277"
-        } ],
-        "basicPropertyValues" : [ {
-          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
-          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
         } ]
       }
     }, {
@@ -84840,6 +84834,10 @@
         },
         "xrefs" : [ {
           "val" : "FMA:15026"
+        } ],
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/RO_0002175",
+          "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
         } ]
       }
     }, {
@@ -92047,6 +92045,8 @@
           "val" : "SCTID:361355005"
         }, {
           "val" : "WikipediaCategory:Head_and_neck"
+        }, {
+          "val" : "ZFA:0001114"
         }, {
           "val" : "galen:HeadAndNeck"
         } ]
@@ -97099,6 +97099,8 @@
           "val" : "EHDAA2:0004731"
         }, {
           "val" : "Wikipedia:Coelom"
+        }, {
+          "val" : "ZFA:0001438"
         } ]
       }
     }, {
@@ -102759,6 +102761,16 @@
           "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606"
         } ]
       }
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/UBERON_8450003",
+      "lbl" : "embryonic craniocervical region",
+      "type" : "CLASS",
+      "meta" : {
+        "definition" : {
+          "val" : "A craniocervical region that is part of an embryo.",
+          "xrefs" : [ "https://orcid.org/0000-0002-6095-8718" ]
+        }
+      }
     }, {
       "id" : "http://purl.obolibrary.org/obo/UBERON_8480001",
       "lbl" : "capillary of brain",
@@ -163417,6 +163429,10 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0002048",
       "pred" : "http://purl.obolibrary.org/obo/BFO_0000050",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0000170"
+    }, {
+      "sub" : "http://purl.obolibrary.org/obo/UBERON_0002048",
+      "pred" : "http://purl.obolibrary.org/obo/BFO_0000051",
+      "obj" : "http://purl.obolibrary.org/obo/UBERON_0002185"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0002048",
       "pred" : "http://purl.obolibrary.org/obo/BSPO_0000126",
@@ -166088,7 +166104,7 @@
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0002539",
       "pred" : "http://purl.obolibrary.org/obo/BFO_0000050",
-      "obj" : "http://purl.obolibrary.org/obo/UBERON_0008816"
+      "obj" : "http://purl.obolibrary.org/obo/UBERON_8450003"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0002539",
       "pred" : "http://purl.obolibrary.org/obo/RO_0002162",
@@ -170561,10 +170577,6 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0004363",
       "pred" : "is_a",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0003469"
-    }, {
-      "sub" : "http://purl.obolibrary.org/obo/UBERON_0004363",
-      "pred" : "is_a",
-      "obj" : "http://purl.obolibrary.org/obo/UBERON_0003496"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0004363",
       "pred" : "is_a",
@@ -177768,7 +177780,7 @@
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0009494",
       "pred" : "is_a",
-      "obj" : "http://purl.obolibrary.org/obo/UBERON_0005253"
+      "obj" : "http://purl.obolibrary.org/obo/UBERON_0005291"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0009494",
       "pred" : "is_a",
@@ -179513,6 +179525,10 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010335",
       "pred" : "http://purl.obolibrary.org/obo/BFO_0000050",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0009526"
+    }, {
+      "sub" : "http://purl.obolibrary.org/obo/UBERON_0010335",
+      "pred" : "http://purl.obolibrary.org/obo/RO_0002202",
+      "obj" : "http://purl.obolibrary.org/obo/UBERON_0006904"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010335",
       "pred" : "http://purl.obolibrary.org/obo/RO_0002202",
@@ -179545,6 +179561,10 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010337",
       "pred" : "http://purl.obolibrary.org/obo/BFO_0000050",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0006905"
+    }, {
+      "sub" : "http://purl.obolibrary.org/obo/UBERON_0010337",
+      "pred" : "http://purl.obolibrary.org/obo/RO_0002202",
+      "obj" : "http://purl.obolibrary.org/obo/UBERON_0006904"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010337",
       "pred" : "http://purl.obolibrary.org/obo/RO_0002202",
@@ -179573,10 +179593,6 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010339",
       "pred" : "http://purl.obolibrary.org/obo/BFO_0000050",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0009584"
-    }, {
-      "sub" : "http://purl.obolibrary.org/obo/UBERON_0010341",
-      "pred" : "is_a",
-      "obj" : "http://purl.obolibrary.org/obo/UBERON_0006904"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010341",
       "pred" : "is_a",
@@ -179593,10 +179609,6 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010343",
       "pred" : "is_a",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0005689"
-    }, {
-      "sub" : "http://purl.obolibrary.org/obo/UBERON_0010343",
-      "pred" : "is_a",
-      "obj" : "http://purl.obolibrary.org/obo/UBERON_0006904"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010343",
       "pred" : "is_a",
@@ -179609,10 +179621,6 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010344",
       "pred" : "is_a",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0005690"
-    }, {
-      "sub" : "http://purl.obolibrary.org/obo/UBERON_0010344",
-      "pred" : "is_a",
-      "obj" : "http://purl.obolibrary.org/obo/UBERON_0006904"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010344",
       "pred" : "is_a",
@@ -179625,10 +179633,6 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010345",
       "pred" : "is_a",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0005691"
-    }, {
-      "sub" : "http://purl.obolibrary.org/obo/UBERON_0010345",
-      "pred" : "is_a",
-      "obj" : "http://purl.obolibrary.org/obo/UBERON_0006904"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010345",
       "pred" : "is_a",
@@ -179637,10 +179641,6 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010345",
       "pred" : "http://purl.obolibrary.org/obo/BFO_0000050",
       "obj" : "http://purl.obolibrary.org/obo/UBERON_0005691"
-    }, {
-      "sub" : "http://purl.obolibrary.org/obo/UBERON_0010347",
-      "pred" : "is_a",
-      "obj" : "http://purl.obolibrary.org/obo/UBERON_0006904"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_0010347",
       "pred" : "is_a",
@@ -185317,6 +185317,14 @@
       "sub" : "http://purl.obolibrary.org/obo/UBERON_8450002",
       "pred" : "http://purl.obolibrary.org/obo/RO_0002215",
       "obj" : "http://purl.obolibrary.org/obo/GO_0046903"
+    }, {
+      "sub" : "http://purl.obolibrary.org/obo/UBERON_8450003",
+      "pred" : "is_a",
+      "obj" : "http://purl.obolibrary.org/obo/UBERON_0007811"
+    }, {
+      "sub" : "http://purl.obolibrary.org/obo/UBERON_8450003",
+      "pred" : "http://purl.obolibrary.org/obo/BFO_0000050",
+      "obj" : "http://purl.obolibrary.org/obo/UBERON_0000922"
     }, {
       "sub" : "http://purl.obolibrary.org/obo/UBERON_8480001",
       "pred" : "is_a",
@@ -227688,6 +227696,13 @@
         "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215",
         "fillerId" : "http://purl.obolibrary.org/obo/GO_0046903"
       } ]
+    }, {
+      "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_8450003",
+      "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0007811" ],
+      "restrictions" : [ {
+        "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050",
+        "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0000922"
+      } ]
     }, {
       "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_8480001",
       "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001982" ],