sr24-curation

WikiPathways WP3942

• WikiPathways: WP3942 (classic)
• Species: Homo sapiens
• Scholia: WP3942

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• CovidDiseaseMapsTests
  • interactionsWithoutReferences: .x we found 1 problem(s):
    • Interactions without literature references: 5
  • missingHGNC: .. all OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .x we found 1 problem(s):
    • The following DataNodes have no identifier: 7
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 5 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBMetabolitesTests: all 2 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• IEMPathwayTests
  • allMetabolitesInteract: .x we found 1 problem(s):
    • Found metabolites without interaction: 6
  • metabolicConversions: .. all OK!
  • catalystsWithCommonDataSource: .. all OK!
  • metabolicConversionIdentifiersCommon: .. all OK!
  • diseasesHaveIdentifiers: .. all OK!
  • omimIdentifiers: .. all OK!
• InteractionTests: all 8 tests OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 15 tests OK!
• OudatedDataSourcesTests: all 24 tests OK!
• PathwayTests: all 7 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 15 tests OK!

Summary

• Number of test classes: 23
• Number of tests: 140
• Number of assertions: 281
• Number of fails: 3

Fails

Interactions without references

Interactions without literature references: 5

• http://classic.wikipathways.org/instance/WP3942_r129708 -> http://rdf.wikipathways.org/Pathway/WP3942_r129708/ComplexBinding/e5513
• http://classic.wikipathways.org/instance/WP3942_r129708 -> http://rdf.wikipathways.org/Pathway/WP3942_r129708/ComplexBinding/b2604
• http://classic.wikipathways.org/instance/WP3942_r129708 -> http://rdf.wikipathways.org/Pathway/WP3942_r129708/ComplexBinding/cd2f5
• http://classic.wikipathways.org/instance/WP3942_r129708 -> http://rdf.wikipathways.org/Pathway/WP3942_r129708/WP/Interaction/c4210
• http://classic.wikipathways.org/instance/WP3942_r129708 -> http://rdf.wikipathways.org/Pathway/WP3942_r129708/WP/Interaction/eb591

More details at https://www.wikipathways.org/WikiPathwaysCurator/CovidDiseaseMapsTests/interactionsWithoutReferences

Data nodes without an identifier

The following DataNodes have no identifier: 7

• http://classic.wikipathways.org/instance/WP3942_r129708 http://rdf.wikipathways.org/Pathway/WP3942_r129708/DataNode/b542b (Adipocytokine signaling pathway)
• http://classic.wikipathways.org/instance/WP3942_r129708 http://rdf.wikipathways.org/Pathway/WP3942_r129708/DataNode/f776a (Fatty acid metabolism)
• http://classic.wikipathways.org/instance/WP3942_r129708 http://rdf.wikipathways.org/Pathway/WP3942_r129708/DataNode/efc1c (Glycerophospholipid metabolism)
• http://classic.wikipathways.org/instance/WP3942_r129708 http://rdf.wikipathways.org/Pathway/WP3942_r129708/DataNode/d8ebb (Primary bile acid biosynthesis)
• http://classic.wikipathways.org/instance/WP3942_r129708 http://rdf.wikipathways.org/Pathway/WP3942_r129708/DataNode/f2b97 (Synthesis and degradation of ketone bodies)
• http://classic.wikipathways.org/instance/WP3942_r129708 http://rdf.wikipathways.org/Pathway/WP3942_r129708/DataNode/a3fdf (Ubc)
• http://classic.wikipathways.org/instance/WP3942_r129708 http://rdf.wikipathways.org/Pathway/WP3942_r129708/DataNode/ecade (cytochrome P450 4A14-like)

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

All metabolites are involved in interactions

Found metabolites without interaction: 6

• https://identifiers.org/wikipathways/WP3942 has an metabolite not linked to an interaction: saturated fatty acids
• https://identifiers.org/wikipathways/WP3942 has an metabolite not linked to an interaction: Thiazolidine derivative
• https://identifiers.org/wikipathways/WP3942 has an metabolite not linked to an interaction: NSAIDs
• https://identifiers.org/wikipathways/WP3942 has an metabolite not linked to an interaction: ciprofibrate
• https://identifiers.org/wikipathways/WP3942 has an metabolite not linked to an interaction: 9-cis-Retinoic acid
• https://identifiers.org/wikipathways/WP3942 has an metabolite not linked to an interaction: eicosanoid

More details at https://www.wikipathways.org/WikiPathwaysCurator/IEMPathwayTests/allMetabolitesInteract