Merge pull request #20 from Cellular-Semantics/19-update-httpsidentif…

…iersorguniprot-prefixes-in-quickgo-pipeline Update UniProt Identifiers
Cellular-Semantics · Feb 7, 2025 · d68ef8a · d68ef8a
2 parents 7307b43 + 78215a7
commit d68ef8a
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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" : "2024-12-12"
+        "val" : "2025-02-06"
       } ],
-      "version" : "http://purl.obolibrary.org/obo/clm/releases/2024-12-12/clm-base.json"
+      "version" : "http://purl.obolibrary.org/obo/clm/releases/2025-02-06/clm-base.json"
     },
     "nodes" : [ {
       "id" : "http://identifiers.org/ensembl/ENSG00000006128",
@@ -404,7 +404,7 @@
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CLM_1000041",
-      "lbl" : "NS forest marker set of ciliated columnar cell of tracheobronchial tree (Human Lung).",
+      "lbl" : "NS forest marker set of multiciliated columnar cell of tracheobronchial tree (Human Lung).",
       "type" : "CLASS",
       "meta" : {
         "basicPropertyValues" : [ {
@@ -414,7 +414,7 @@
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CLM_1000043",
-      "lbl" : "NS forest marker set of lung neuroendocrine cell (Human Lung).",
+      "lbl" : "NS forest marker set of pulmonary neuroendocrine cell (Human Lung).",
       "type" : "CLASS",
       "meta" : {
         "basicPropertyValues" : [ {
@@ -484,7 +484,7 @@
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CLM_1000059",
-      "lbl" : "NS forest marker set of respiratory suprabasal cell (Human Lung).",
+      "lbl" : "NS forest marker set of respiratory tract suprabasal cell (Human Lung).",
       "type" : "CLASS",
       "meta" : {
         "basicPropertyValues" : [ {
@@ -624,7 +624,7 @@
       }
     }, {
       "id" : "http://purl.obolibrary.org/obo/CLM_1000079",
-      "lbl" : "NS forest marker set of Pax6 (Human Brain).",
+      "lbl" : "NS forest marker set of PAX6 GABAergic cortical interneuron (Human Brain).",
       "type" : "CLASS",
       "meta" : {
         "basicPropertyValues" : [ {

diff --git a/clm-base.obo b/clm-base.obo
@@ -1,5 +1,5 @@
 format-version: 1.2
-data-version: clm/releases/2024-12-12/clm-base.owl
+data-version: clm/releases/2025-02-06/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 "2024-12-12" xsd:string
+property_value: owl:versionInfo "2025-02-06" xsd:string
 
 [Term]
 id: CL:0000583
@@ -37,7 +37,7 @@ property_value: RO:0002175 NCBITaxon:9606
 [Term]
 id: CL:0002145
 comment: The marker set C1orf194, MS4A8 can identify the Human cell type ciliated columnar cell of tracheobronchial tree in the Lung with a confidence of 0.86 (NS-Forest FBeta value). {xref="https://doi.org/10.5281/zenodo.11165918"}
-relationship: RO:0015004 CLM:1000041 ! has characterizing marker set NS forest marker set of ciliated columnar cell of tracheobronchial tree (Human Lung).
+relationship: RO:0015004 CLM:1000041 ! has characterizing marker set NS forest marker set of multiciliated columnar cell of tracheobronchial tree (Human Lung).
 property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
@@ -73,7 +73,7 @@ property_value: RO:0002175 NCBITaxon:9606
 [Term]
 id: CL:1000223
 comment: The marker set CHGA, GRP can identify the Human cell type lung neuroendocrine cell in the Lung with a confidence of 0.94 (NS-Forest FBeta value). {xref="https://doi.org/10.5281/zenodo.11165918"}
-relationship: RO:0015004 CLM:1000043 ! has characterizing marker set NS forest marker set of lung neuroendocrine cell (Human Lung).
+relationship: RO:0015004 CLM:1000043 ! has characterizing marker set NS forest marker set of pulmonary neuroendocrine cell (Human Lung).
 property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
@@ -229,7 +229,7 @@ property_value: RO:0002175 NCBITaxon:9606
 [Term]
 id: CL:4033048
 comment: The marker set TNC, KRT15, SERPINB4 can identify the Human cell type respiratory suprabasal cell in the Lung with a confidence of 0.62 (NS-Forest FBeta value). {xref="https://doi.org/10.5281/zenodo.11165918"}
-relationship: RO:0015004 CLM:1000059 ! has characterizing marker set NS forest marker set of respiratory suprabasal cell (Human Lung).
+relationship: RO:0015004 CLM:1000059 ! has characterizing marker set NS forest marker set of respiratory tract suprabasal cell (Human Lung).
 property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
@@ -253,7 +253,7 @@ property_value: RO:0002175 NCBITaxon:9606
 [Term]
 id: CL:4042032
 comment: The marker set RELN, HCRTR2 can identify the Human cell type http://purl.obolibrary.org/obo/CL_4042032 in the Brain with a confidence of 0.724125093 (NS-Forest FBeta value). {xref="https://doi.org/10.5281/zenodo.11165918"}
-relationship: RO:0015004 CLM:1000079 ! has characterizing marker set NS forest marker set of Pax6 (Human Brain).
+relationship: RO:0015004 CLM:1000079 ! has characterizing marker set NS forest marker set of PAX6 GABAergic cortical interneuron (Human Brain).
 property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
@@ -364,15 +364,15 @@ property_value: STATO:0000663 "0.82" xsd:string
 
 [Term]
 id: CLM:1000041
-name: NS forest marker set of ciliated columnar cell of tracheobronchial tree (Human Lung).
+name: NS forest marker set of multiciliated columnar cell of tracheobronchial tree (Human Lung).
 is_a: SO:0001260 ! sequence_collection
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000166959
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000179902
 property_value: STATO:0000663 "0.86" xsd:string
 
 [Term]
 id: CLM:1000043
-name: NS forest marker set of lung neuroendocrine cell (Human Lung).
+name: NS forest marker set of pulmonary neuroendocrine cell (Human Lung).
 is_a: SO:0001260 ! sequence_collection
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000100604
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000134443
@@ -427,7 +427,7 @@ property_value: STATO:0000663 "0.69" xsd:string
 
 [Term]
 id: CLM:1000059
-name: NS forest marker set of respiratory suprabasal cell (Human Lung).
+name: NS forest marker set of respiratory tract suprabasal cell (Human Lung).
 is_a: SO:0001260 ! sequence_collection
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000041982
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000171346
@@ -543,7 +543,7 @@ property_value: STATO:0000663 "0.821678322" xsd:string
 
 [Term]
 id: CLM:1000079
-name: NS forest marker set of Pax6 (Human Brain).
+name: NS forest marker set of PAX6 GABAergic cortical interneuron (Human Brain).
 is_a: SO:0001260 ! sequence_collection
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000137252
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000189056

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/2024-12-12/clm-base.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/clm/releases/2025-02-06/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>2024-12-12</owl:versionInfo>
+        <owl:versionInfo>2025-02-06</owl:versionInfo>
     </owl:Ontology>
 
 
@@ -951,7 +951,7 @@
             </owl:Class>
         </rdfs:subClassOf>
         <obo:STATO_0000663>0.86</obo:STATO_0000663>
-        <rdfs:label>NS forest marker set of ciliated columnar cell of tracheobronchial tree (Human Lung).</rdfs:label>
+        <rdfs:label>NS forest marker set of multiciliated columnar cell of tracheobronchial tree (Human Lung).</rdfs:label>
     </owl:Class>
 
 
@@ -975,7 +975,7 @@
             </owl:Class>
         </rdfs:subClassOf>
         <obo:STATO_0000663>0.94</obo:STATO_0000663>
-        <rdfs:label>NS forest marker set of lung neuroendocrine cell (Human Lung).</rdfs:label>
+        <rdfs:label>NS forest marker set of pulmonary neuroendocrine cell (Human Lung).</rdfs:label>
     </owl:Class>
 
 
@@ -1139,7 +1139,7 @@
             </owl:Class>
         </rdfs:subClassOf>
         <obo:STATO_0000663>0.62</obo:STATO_0000663>
-        <rdfs:label>NS forest marker set of respiratory suprabasal cell (Human Lung).</rdfs:label>
+        <rdfs:label>NS forest marker set of respiratory tract suprabasal cell (Human Lung).</rdfs:label>
     </owl:Class>
 
 
@@ -1487,7 +1487,7 @@
             </owl:Class>
         </rdfs:subClassOf>
         <obo:STATO_0000663>0.724125093</obo:STATO_0000663>
-        <rdfs:label>NS forest marker set of Pax6 (Human Brain).</rdfs:label>
+        <rdfs:label>NS forest marker set of PAX6 GABAergic cortical interneuron (Human Brain).</rdfs:label>
     </owl:Class>
 
 

diff --git a/clm-cl.json b/clm-cl.json
@@ -879,10 +879,10 @@
           },
           {
             "pred": "http://www.w3.org/2002/07/owl#versionInfo",
-            "val": "2024-12-12"
+            "val": "2025-02-06"
           }
         ],
-        "version": "http://purl.obolibrary.org/obo/clm/releases/2024-12-12/clm-cl.json"
+        "version": "http://purl.obolibrary.org/obo/clm/releases/2025-02-06/clm-cl.json"
       },
       "nodes": [
         {
@@ -1056,7 +1056,7 @@
         },
         {
           "id": "http://purl.obolibrary.org/obo/CLM_1000041",
-          "lbl": "NS forest marker set of ciliated columnar cell of tracheobronchial tree (Human Lung).",
+          "lbl": "NS forest marker set of multiciliated columnar cell of tracheobronchial tree (Human Lung).",
           "meta": {
             "basicPropertyValues": [
               {
@@ -1069,7 +1069,7 @@
         },
         {
           "id": "http://purl.obolibrary.org/obo/CLM_1000043",
-          "lbl": "NS forest marker set of lung neuroendocrine cell (Human Lung).",
+          "lbl": "NS forest marker set of pulmonary neuroendocrine cell (Human Lung).",
           "meta": {
             "basicPropertyValues": [
               {
@@ -1160,7 +1160,7 @@
         },
         {
           "id": "http://purl.obolibrary.org/obo/CLM_1000059",
-          "lbl": "NS forest marker set of respiratory suprabasal cell (Human Lung).",
+          "lbl": "NS forest marker set of respiratory tract suprabasal cell (Human Lung).",
           "meta": {
             "basicPropertyValues": [
               {
@@ -1342,7 +1342,7 @@
         },
         {
           "id": "http://purl.obolibrary.org/obo/CLM_1000079",
-          "lbl": "NS forest marker set of Pax6 (Human Brain).",
+          "lbl": "NS forest marker set of PAX6 GABAergic cortical interneuron (Human Brain).",
           "meta": {
             "basicPropertyValues": [
               {

diff --git a/clm-cl.obo b/clm-cl.obo
@@ -1,5 +1,5 @@
 format-version: 1.2
-data-version: clm/releases/2024-12-12/clm-cl.owl
+data-version: clm/releases/2025-02-06/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 "2024-12-12" xsd:string
+property_value: owl:versionInfo "2025-02-06" xsd:string
 
 [Term]
 id: CL:0000583
@@ -37,7 +37,7 @@ property_value: RO:0002175 NCBITaxon:9606
 [Term]
 id: CL:0002145
 comment: The marker set C1orf194, MS4A8 can identify the Human cell type ciliated columnar cell of tracheobronchial tree in the Lung with a confidence of 0.86 (NS-Forest FBeta value). {xref="https://doi.org/10.5281/zenodo.11165918"}
-relationship: RO:0015004 CLM:1000041 ! has characterizing marker set NS forest marker set of ciliated columnar cell of tracheobronchial tree (Human Lung).
+relationship: RO:0015004 CLM:1000041 ! has characterizing marker set NS forest marker set of multiciliated columnar cell of tracheobronchial tree (Human Lung).
 property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
@@ -73,7 +73,7 @@ property_value: RO:0002175 NCBITaxon:9606
 [Term]
 id: CL:1000223
 comment: The marker set CHGA, GRP can identify the Human cell type lung neuroendocrine cell in the Lung with a confidence of 0.94 (NS-Forest FBeta value). {xref="https://doi.org/10.5281/zenodo.11165918"}
-relationship: RO:0015004 CLM:1000043 ! has characterizing marker set NS forest marker set of lung neuroendocrine cell (Human Lung).
+relationship: RO:0015004 CLM:1000043 ! has characterizing marker set NS forest marker set of pulmonary neuroendocrine cell (Human Lung).
 property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
@@ -229,7 +229,7 @@ property_value: RO:0002175 NCBITaxon:9606
 [Term]
 id: CL:4033048
 comment: The marker set TNC, KRT15, SERPINB4 can identify the Human cell type respiratory suprabasal cell in the Lung with a confidence of 0.62 (NS-Forest FBeta value). {xref="https://doi.org/10.5281/zenodo.11165918"}
-relationship: RO:0015004 CLM:1000059 ! has characterizing marker set NS forest marker set of respiratory suprabasal cell (Human Lung).
+relationship: RO:0015004 CLM:1000059 ! has characterizing marker set NS forest marker set of respiratory tract suprabasal cell (Human Lung).
 property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
@@ -253,7 +253,7 @@ property_value: RO:0002175 NCBITaxon:9606
 [Term]
 id: CL:4042032
 comment: The marker set RELN, HCRTR2 can identify the Human cell type http://purl.obolibrary.org/obo/CL_4042032 in the Brain with a confidence of 0.724125093 (NS-Forest FBeta value). {xref="https://doi.org/10.5281/zenodo.11165918"}
-relationship: RO:0015004 CLM:1000079 ! has characterizing marker set NS forest marker set of Pax6 (Human Brain).
+relationship: RO:0015004 CLM:1000079 ! has characterizing marker set NS forest marker set of PAX6 GABAergic cortical interneuron (Human Brain).
 property_value: RO:0002175 NCBITaxon:9606
 
 [Term]
@@ -364,15 +364,15 @@ property_value: STATO:0000663 "0.82" xsd:string
 
 [Term]
 id: CLM:1000041
-name: NS forest marker set of ciliated columnar cell of tracheobronchial tree (Human Lung).
+name: NS forest marker set of multiciliated columnar cell of tracheobronchial tree (Human Lung).
 is_a: SO:0001260 ! sequence_collection
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000166959 ! MS4A8
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000179902 ! C1orf194
 property_value: STATO:0000663 "0.86" xsd:string
 
 [Term]
 id: CLM:1000043
-name: NS forest marker set of lung neuroendocrine cell (Human Lung).
+name: NS forest marker set of pulmonary neuroendocrine cell (Human Lung).
 is_a: SO:0001260 ! sequence_collection
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000100604 ! CHGA
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000134443 ! GRP
@@ -427,7 +427,7 @@ property_value: STATO:0000663 "0.69" xsd:string
 
 [Term]
 id: CLM:1000059
-name: NS forest marker set of respiratory suprabasal cell (Human Lung).
+name: NS forest marker set of respiratory tract suprabasal cell (Human Lung).
 is_a: SO:0001260 ! sequence_collection
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000041982 ! TNC
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000171346 ! KRT15
@@ -543,7 +543,7 @@ property_value: STATO:0000663 "0.821678322" xsd:string
 
 [Term]
 id: CLM:1000079
-name: NS forest marker set of Pax6 (Human Brain).
+name: NS forest marker set of PAX6 GABAergic cortical interneuron (Human Brain).
 is_a: SO:0001260 ! sequence_collection
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000137252 ! HCRTR2
 relationship: BFO:0000051 http://identifiers.org/ensembl/ENSG00000189056 ! RELN

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/2024-12-12/clm-cl.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/clm/releases/2025-02-06/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>2024-12-12</owl:versionInfo>
+        <owl:versionInfo>2025-02-06</owl:versionInfo>
     </owl:Ontology>
 
 
@@ -1203,7 +1203,7 @@
             </owl:Class>
         </rdfs:subClassOf>
         <obo:STATO_0000663>0.86</obo:STATO_0000663>
-        <rdfs:label>NS forest marker set of ciliated columnar cell of tracheobronchial tree (Human Lung).</rdfs:label>
+        <rdfs:label>NS forest marker set of multiciliated columnar cell of tracheobronchial tree (Human Lung).</rdfs:label>
     </owl:Class>
 
 
@@ -1227,7 +1227,7 @@
             </owl:Class>
         </rdfs:subClassOf>
         <obo:STATO_0000663>0.94</obo:STATO_0000663>
-        <rdfs:label>NS forest marker set of lung neuroendocrine cell (Human Lung).</rdfs:label>
+        <rdfs:label>NS forest marker set of pulmonary neuroendocrine cell (Human Lung).</rdfs:label>
     </owl:Class>
 
 
@@ -1391,7 +1391,7 @@
             </owl:Class>
         </rdfs:subClassOf>
         <obo:STATO_0000663>0.62</obo:STATO_0000663>
-        <rdfs:label>NS forest marker set of respiratory suprabasal cell (Human Lung).</rdfs:label>
+        <rdfs:label>NS forest marker set of respiratory tract suprabasal cell (Human Lung).</rdfs:label>
     </owl:Class>
 
 
@@ -1739,7 +1739,7 @@
             </owl:Class>
         </rdfs:subClassOf>
         <obo:STATO_0000663>0.724125093</obo:STATO_0000663>
-        <rdfs:label>NS forest marker set of Pax6 (Human Brain).</rdfs:label>
+        <rdfs:label>NS forest marker set of PAX6 GABAergic cortical interneuron (Human Brain).</rdfs:label>
     </owl:Class>