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Update SSSOM Extended Prefix Map (#508)
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This pull request updates sssom extended prefix map (epm). Make sure you
run make tests manually.

Co-authored-by: matentzn <matentzn@users.noreply.github.com>
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github-actions[bot] and matentzn committed Apr 1, 2024
1 parent 7567414 commit 64f6908
Showing 1 changed file with 99 additions and 97 deletions.
196 changes: 99 additions & 97 deletions src/sssom/obo.epm.json
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Original file line number Diff line number Diff line change
Expand Up @@ -2182,13 +2182,11 @@
"http://bioregistry.io/FBbt:",
"http://bioregistry.io/FBbt_root:",
"http://bioregistry.io/fbbt:",
"http://flybase.org/cgi-bin/fbcvq.html?query=FBbt:",
"http://www.ebi.ac.uk/ols/ontologies/fbbt/terms?iri=http://purl.obolibrary.org/obo/FBbt_",
"https://bio2rdf.org/fbbt:",
"https://bioregistry.io/FBbt:",
"https://bioregistry.io/FBbt_root:",
"https://bioregistry.io/fbbt:",
"https://flybase.org/cgi-bin/fbcvq.html?query=FBbt:",
"https://purl.obolibrary.org/obo/FBbt_",
"https://www.ebi.ac.uk/ols/ontologies/fbbt/terms?iri=http://purl.obolibrary.org/obo/FBbt_"
]
Expand Down Expand Up @@ -3452,6 +3450,102 @@
"https://www.ebi.ac.uk/ols4/ontologies/mcro/classes?obo_id=MCRO:"
]
},
{
"pattern": "^(C|D)\\d{6,9}$",
"prefix": "MESH",
"prefix_synonyms": [
"MESHA",
"MESHC",
"MESHCS",
"MESHD",
"MESHPP",
"MESH_DESCRIPTOR_UI",
"MESH_SUPPLEMENTAL_RECORD_UI",
"MSH",
"MSH2010_2010_02_22",
"ctd.chemical",
"ctd.disease",
"mesh",
"mesh.2012",
"mesh.2013"
],
"uri_prefix": "http://id.nlm.nih.gov/mesh/",
"uri_prefix_synonyms": [
"http://bio2rdf.org/mesh:",
"http://bioregistry.io/MESH:",
"http://bioregistry.io/MESHA:",
"http://bioregistry.io/MESHC:",
"http://bioregistry.io/MESHCS:",
"http://bioregistry.io/MESHD:",
"http://bioregistry.io/MESHPP:",
"http://bioregistry.io/MESH_DESCRIPTOR_UI:",
"http://bioregistry.io/MESH_SUPPLEMENTAL_RECORD_UI:",
"http://bioregistry.io/MSH2010_2010_02_22:",
"http://bioregistry.io/MSH:",
"http://bioregistry.io/ctd.chemical:",
"http://bioregistry.io/ctd.disease:",
"http://bioregistry.io/mesh.2012:",
"http://bioregistry.io/mesh.2013:",
"http://bioregistry.io/mesh:",
"http://ctdbase.org/detail.go?type=chem&acc=",
"http://ctdbase.org/detail.go?type=disease&db=MESH&acc=",
"http://identifiers.org/ctd.chemical/",
"http://identifiers.org/ctd.chemical:",
"http://identifiers.org/ctd.disease/",
"http://identifiers.org/ctd.disease:",
"http://identifiers.org/mesh.2012/",
"http://identifiers.org/mesh.2012:",
"http://identifiers.org/mesh.2013/",
"http://identifiers.org/mesh.2013:",
"http://identifiers.org/mesh/",
"http://identifiers.org/mesh:",
"http://meshb.nlm.nih.gov/record/ui?ui=",
"http://n2t.net/ctd.chemical:",
"http://n2t.net/ctd.disease:",
"http://n2t.net/mesh.2012:",
"http://n2t.net/mesh.2013:",
"http://n2t.net/mesh:",
"http://purl.bioontology.org/ontology/MESH/",
"http://www.nlm.nih.gov/cgi/mesh/2013/MB_cgi?field=uid&term=",
"https://bio2rdf.org/mesh:",
"https://bioregistry.io/MESH:",
"https://bioregistry.io/MESHA:",
"https://bioregistry.io/MESHC:",
"https://bioregistry.io/MESHCS:",
"https://bioregistry.io/MESHD:",
"https://bioregistry.io/MESHPP:",
"https://bioregistry.io/MESH_DESCRIPTOR_UI:",
"https://bioregistry.io/MESH_SUPPLEMENTAL_RECORD_UI:",
"https://bioregistry.io/MSH2010_2010_02_22:",
"https://bioregistry.io/MSH:",
"https://bioregistry.io/ctd.chemical:",
"https://bioregistry.io/ctd.disease:",
"https://bioregistry.io/mesh.2012:",
"https://bioregistry.io/mesh.2013:",
"https://bioregistry.io/mesh:",
"https://ctdbase.org/detail.go?type=chem&acc=",
"https://ctdbase.org/detail.go?type=disease&db=MESH&acc=",
"https://id.nlm.nih.gov/mesh/",
"https://identifiers.org/ctd.chemical/",
"https://identifiers.org/ctd.chemical:",
"https://identifiers.org/ctd.disease/",
"https://identifiers.org/ctd.disease:",
"https://identifiers.org/mesh.2012/",
"https://identifiers.org/mesh.2012:",
"https://identifiers.org/mesh.2013/",
"https://identifiers.org/mesh.2013:",
"https://identifiers.org/mesh/",
"https://identifiers.org/mesh:",
"https://meshb.nlm.nih.gov/record/ui?ui=",
"https://n2t.net/ctd.chemical:",
"https://n2t.net/ctd.disease:",
"https://n2t.net/mesh.2012:",
"https://n2t.net/mesh.2013:",
"https://n2t.net/mesh:",
"https://purl.bioontology.org/ontology/MESH/",
"https://www.nlm.nih.gov/cgi/mesh/2013/MB_cgi?field=uid&term="
]
},
{
"pattern": "^\\d{7}$",
"prefix": "MF",
Expand Down Expand Up @@ -6280,7 +6374,7 @@
"umls",
"umls.cui"
],
"uri_prefix": "http://linkedlifedata.com/resource/umls/id/",
"uri_prefix": "https://uts.nlm.nih.gov/uts/umls/concept/",
"uri_prefix_synonyms": [
"http://bioregistry.io/UMLS CUI:",
"http://bioregistry.io/UMLS:",
Expand All @@ -6292,10 +6386,12 @@
"http://identifiers.org/sider.effect:",
"http://identifiers.org/umls/",
"http://identifiers.org/umls:",
"http://linkedlifedata.com/resource/umls/id/",
"http://n2t.net/sider.effect:",
"http://n2t.net/umls:",
"http://ncim-stage.nci.nih.gov/ncimbrowser/ConceptReport.jsp?dictionary=NCI%20Metathesaurus&code=",
"http://sideeffects.embl.de/se/",
"http://uts.nlm.nih.gov/uts/umls/concept/",
"https://bioregistry.io/UMLS CUI:",
"https://bioregistry.io/UMLS:",
"https://bioregistry.io/UMLS_CUI:",
Expand Down Expand Up @@ -17143,100 +17239,6 @@
"https://n2t.net/merops.family:"
]
},
{
"pattern": "^(C|D)\\d{6,9}$",
"prefix": "mesh",
"prefix_synonyms": [
"MESH",
"MESHA",
"MESHC",
"MESHCS",
"MESHD",
"MESHPP",
"MESH_DESCRIPTOR_UI",
"MESH_SUPPLEMENTAL_RECORD_UI",
"MSH",
"MSH2010_2010_02_22",
"ctd.chemical",
"ctd.disease",
"mesh.2012",
"mesh.2013"
],
"uri_prefix": "http://id.nlm.nih.gov/mesh/",
"uri_prefix_synonyms": [
"http://bio2rdf.org/mesh:",
"http://bioregistry.io/MESH:",
"http://bioregistry.io/MESHA:",
"http://bioregistry.io/MESHC:",
"http://bioregistry.io/MESHCS:",
"http://bioregistry.io/MESHD:",
"http://bioregistry.io/MESHPP:",
"http://bioregistry.io/MESH_DESCRIPTOR_UI:",
"http://bioregistry.io/MESH_SUPPLEMENTAL_RECORD_UI:",
"http://bioregistry.io/MSH2010_2010_02_22:",
"http://bioregistry.io/MSH:",
"http://bioregistry.io/ctd.chemical:",
"http://bioregistry.io/ctd.disease:",
"http://bioregistry.io/mesh.2012:",
"http://bioregistry.io/mesh.2013:",
"http://bioregistry.io/mesh:",
"http://ctdbase.org/detail.go?type=chem&acc=",
"http://ctdbase.org/detail.go?type=disease&db=MESH&acc=",
"http://identifiers.org/ctd.chemical/",
"http://identifiers.org/ctd.chemical:",
"http://identifiers.org/ctd.disease/",
"http://identifiers.org/ctd.disease:",
"http://identifiers.org/mesh.2012/",
"http://identifiers.org/mesh.2012:",
"http://identifiers.org/mesh.2013/",
"http://identifiers.org/mesh.2013:",
"http://identifiers.org/mesh/",
"http://identifiers.org/mesh:",
"http://meshb.nlm.nih.gov/record/ui?ui=",
"http://n2t.net/ctd.chemical:",
"http://n2t.net/ctd.disease:",
"http://n2t.net/mesh.2012:",
"http://n2t.net/mesh.2013:",
"http://n2t.net/mesh:",
"http://www.nlm.nih.gov/cgi/mesh/2013/MB_cgi?field=uid&term=",
"https://bio2rdf.org/mesh:",
"https://bioregistry.io/MESH:",
"https://bioregistry.io/MESHA:",
"https://bioregistry.io/MESHC:",
"https://bioregistry.io/MESHCS:",
"https://bioregistry.io/MESHD:",
"https://bioregistry.io/MESHPP:",
"https://bioregistry.io/MESH_DESCRIPTOR_UI:",
"https://bioregistry.io/MESH_SUPPLEMENTAL_RECORD_UI:",
"https://bioregistry.io/MSH2010_2010_02_22:",
"https://bioregistry.io/MSH:",
"https://bioregistry.io/ctd.chemical:",
"https://bioregistry.io/ctd.disease:",
"https://bioregistry.io/mesh.2012:",
"https://bioregistry.io/mesh.2013:",
"https://bioregistry.io/mesh:",
"https://ctdbase.org/detail.go?type=chem&acc=",
"https://ctdbase.org/detail.go?type=disease&db=MESH&acc=",
"https://id.nlm.nih.gov/mesh/",
"https://identifiers.org/ctd.chemical/",
"https://identifiers.org/ctd.chemical:",
"https://identifiers.org/ctd.disease/",
"https://identifiers.org/ctd.disease:",
"https://identifiers.org/mesh.2012/",
"https://identifiers.org/mesh.2012:",
"https://identifiers.org/mesh.2013/",
"https://identifiers.org/mesh.2013:",
"https://identifiers.org/mesh/",
"https://identifiers.org/mesh:",
"https://meshb.nlm.nih.gov/record/ui?ui=",
"https://n2t.net/ctd.chemical:",
"https://n2t.net/ctd.disease:",
"https://n2t.net/mesh.2012:",
"https://n2t.net/mesh.2013:",
"https://n2t.net/mesh:",
"https://www.nlm.nih.gov/cgi/mesh/2013/MB_cgi?field=uid&term="
]
},
{
"prefix": "mesh.vocab",
"uri_prefix": "http://id.nlm.nih.gov/mesh/vocab#",
Expand Down

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