wikipathways-collection

WikiPathways WP2023

• WikiPathways: WP2023 (classic)
• Species: Homo sapiens
• Scholia: WP2023

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .x we found 1 problem(s):
    • The following DataNodes have no identifier: 6
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests: all 8 tests OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 tests OK!
• OudatedDataSourcesTests: all 24 tests OK!
• PathwayTests: all 7 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests
  • nonNumericPubMedIDs: .. all OK!
  • unexpectedPubMedIdentifier: .. all OK!
  • zeroPubMedIDs: .. all OK!
  • atLeastOneReference: .x we found 1 problem(s):
    • Found 1 pathways with zero (PubMed) references
  • citesRetractedArticle: .. all OK!
  • outdatedPubMedIdentifiers: .. all OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 20
• Number of tests: 117
• Number of assertions: 235
• Number of fails: 2

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 6

• http://classic.wikipathways.org/instance/WP2023_r117676 http://rdf.wikipathways.org/Pathway/WP2023_r117676/DataNode/faacd (?)
• http://classic.wikipathways.org/instance/WP2023_r117676 http://rdf.wikipathways.org/Pathway/WP2023_r117676/DataNode/ad954 (ELK2)
• http://classic.wikipathways.org/instance/WP2023_r117676 http://rdf.wikipathways.org/Pathway/WP2023_r117676/DataNode/ec659 (MIR109)
• http://classic.wikipathways.org/instance/WP2023_r117676 http://rdf.wikipathways.org/Pathway/WP2023_r117676/DataNode/ae436 (MIR2861)
• http://classic.wikipathways.org/instance/WP2023_r117676 http://rdf.wikipathways.org/Pathway/WP2023_r117676/DataNode/d0864 (OCT4)
• http://classic.wikipathways.org/instance/WP2023_r117676 http://rdf.wikipathways.org/Pathway/WP2023_r117676/DataNode/c37ee (TGF-beta)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/dataNodesWithoutIdentifier

At least one reference

Found 1 pathways with zero (PubMed) references

• http://classic.wikipathways.org/instance/WP2023_r117676 ‘Cell differentiation - expanded index’ in Homo sapiens has zero references;

More details at https://www.wikipathways.org/WikiPathwaysCurator/ReferencesTests/atLeastOneReference