combined_from:
  build_ncit_uniprot_relationships():
    combined_from: []
    counts:
      concords:
        count_concords: 6215
        count_distinct_curies: 12237
        predicates:
          eq: 6215
        prefix_counts:
          eq(NCIT, UniProtKB): 6215
    created_at: '2025-08-03T05:26:26.511705'
    description: Extracts NCIT-to-UniProtKB relationships from the NCIt-SwissProt_Mapping
      file (babel_downloads/NCIT/NCIt-SwissProt_Mapping.txt).
    name: build_ncit_uniprot_relationships()
    sources:
    - filename: babel_downloads/NCIT/NCIt-SwissProt_Mapping.txt
      name: NCIt-SwissProt Mapping file
    type: concord
    url: ''
  build_pr_uniprot_relationships():
    combined_from: []
    counts:
      concords:
        count_concords: 205386
        count_distinct_curies: 391995
        predicates:
          xref: 205386
        prefix_counts:
          xref(Alzforum_mut, PR): 459
          xref(DTO, PR): 1829
          xref(EcoCyc, PR): 4039
          xref(GenPept, PR): 40
          xref(IRO, PR): 10
          xref(IUPHAR, PR): 5
          xref(IUPHARfam, PR): 93
          xref(IUPHARobj, PR): 2823
          xref(MIRO, PR): 11
          xref(MRO, PR): 23
          xref(PDB, PR): 10
          xref(PIRSF, PR): 555
          xref(PR, Reactome): 20592
          xref(PR, TDR): 512
          xref(PR, UniProtKB): 173922
          xref(PR, UniProtKB_VAR): 463
    created_at: '2025-08-04T06:42:20.005542'
    description: Extracts PR xrefs from UberGraph after getting subclasses and xrefs
      of PR:000000001, ignoring [].
    name: build_pr_uniprot_relationships()
    sources:
    - name: UberGraph
      type: UberGraph
    type: concord
    url: ''
  build_protein_uniprotkb_ensemble_relationships():
    combined_from: []
    counts:
      concords:
        count_concords: 19670323
        count_distinct_curies: 38676424
        predicates:
          eq: 19670323
        prefix_counts:
          eq(ENSEMBL, ENSEMBL): 9655168
          eq(ENSEMBL, UniProtKB): 10015155
    created_at: '2025-08-03T06:40:26.060268'
    description: Extracts UniProtKB-to-ENSEMBL relationships from the ENSEMBL id-mapping
      file (babel_downloads/UniProtKB/idmapping.dat) file.
    name: build_protein_uniprotkb_ensemble_relationships()
    sources:
    - filename: babel_downloads/UniProtKB/idmapping.dat
      name: ENSEMBL
    type: concord
    url: ''
  get_umls_gene_protein_mappings:
    combined_from: []
    counts:
      concords:
        count_concords: 23036
        count_distinct_curies: 36787
        predicates:
          oio:closeMatch: 23036
        prefix_counts:
          oio:closeMatch(UMLS, UniProtKB): 23036
    created_at: '2025-08-03T05:57:11.944796'
    description: Download UMLS-UniProtKB protein mappings from https://raw.githubusercontent.com/cbizon/UMLS_UniProtKB/refs/heads/main/outputs/UMLS_UniProtKB.tsv
    name: get_umls_gene_protein_mappings
    sources:
    - name: UMLS-UniProtKB mappings
      type: download
      url: https://raw.githubusercontent.com/cbizon/UMLS_UniProtKB/refs/heads/main/outputs/UMLS_UniProtKB.tsv
    type: concord
    url: ''
  umls.build_sets():
  - combined_from: []
    counts:
      concords:
        count_concords: 15183
        count_distinct_curies: 27443
        predicates:
          eq: 15183
        prefix_counts:
          eq(NCIT, UMLS): 15183
    created_at: '2025-08-03T05:41:38.995399'
    description: 'umls.build_sets() using UMLS MRCONSO with prefixes: {''NCI'': ''NCIT''}
      with cui_prefix set to UMLS'
    name: umls.build_sets()
    sources:
    - name: MRCONSO
      type: UMLS
    type: concord
    url: ''
  - combined_from: []
    counts:
      concords:
        count_concords: 107687
        count_distinct_curies: 214194
        predicates:
          eq: 107687
        prefix_counts:
          eq(DRUGBANK, UMLS): 2664
          eq(MESH, UMLS): 105023
    created_at: '2025-08-28T01:41:55.081579'
    description: 'umls.build_sets() using UMLS MRCONSO with prefixes: {''MSH'': ''MESH'',
      ''DRUGBANK'': ''DRUGBANK''} with cui_prefix set to UMLS'
    name: umls.build_sets()
    sources:
    - name: MRCONSO
      type: UMLS
    type: concord
    url: ''
counts:
  cliques: 255548183
  eq_ids: 275558924
  property_sources: !!python/object/apply:collections.defaultdict
  - !!python/name:builtins.int ''
  synonyms: 255240651
created_at: '2025-08-29T00:59:03.380431'
description: ''
name: Protein.txt
sources: []
type: compendium
url: ''
