wikipathways-collection

WikiPathways WP4698

• WikiPathways: WP4698 (classic)
• Species: Homo sapiens
• Scholia: WP4698

  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: 3
  • 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
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .x we found 1 problem(s):
    • Interactions found that involve Labels: 7
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 2
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all 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: all 6 tests 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: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 3

• http://classic.wikipathways.org/instance/WP4698_r134350 http://rdf.wikipathways.org/Pathway/WP4698_r134350/DataNode/fe896 (Inflammatory cytokines )
• http://classic.wikipathways.org/instance/WP4698_r134350 http://rdf.wikipathways.org/Pathway/WP4698_r134350/DataNode/df863 (PLC)
• http://classic.wikipathways.org/instance/WP4698_r134350 http://rdf.wikipathways.org/Pathway/WP4698_r134350/DataNode/fa1b3 (PMCA)

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 7

http://classic.wikipathways.org/instance/WP4698_r134350 "VDRE" with graphId b7f52
http://classic.wikipathways.org/instance/WP4698_r134350 "Antioxidant genes
" with graphId a7e89
http://classic.wikipathways.org/instance/WP4698_r134350 "Depression" with graphId b5275
http://classic.wikipathways.org/instance/WP4698_r134350 "VDR target genes
" with graphId e182c
http://classic.wikipathways.org/instance/WP4698_r134350 "Sunlight" with graphId c8707
http://classic.wikipathways.org/instance/WP4698_r134350 "ARE" with graphId f6742
http://classic.wikipathways.org/instance/WP4698_r134350 "Open" with graphId b5cbb

Possible MIM translocation

Interactions between identical nodes: 2

http://classic.wikipathways.org/instance/WP4698_r134350 http://rdf.wikipathways.org/Pathway/WP4698_r134350/WP/Interaction/idf9cb2840 "NFE2L2" (https://identifiers.org/ensembl/ENSG00000116044) and 
NFE2L2" (https://identifiers.org/ensembl/ENSG00000116044)
http://classic.wikipathways.org/instance/WP4698_r134350 http://rdf.wikipathways.org/Pathway/WP4698_r134350/WP/Interaction/ide38899bd "Vitamin D3" (https://identifiers.org/chebi/CHEBI:28940) and 
Vitamin D3" (https://identifiers.org/chebi/CHEBI:28940)

More details at https://www.wikipathways.org/WikiPathwaysCurator/InteractionTests/possibleTranslocations