wikipathways-collection

WikiPathways WP5407

• WikiPathways: WP5407 (classic)
• Species: Homo sapiens
• Scholia: WP5407

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests: all 5 tests OK!
• EnsemblTests: all 4 tests OK!
• GeneTests
  • entrezGeneIdentifiersNotNumber: .. all OK!
  • affyProbeIdentifiersNotCorrect: .. all OK!
  • outdatedIdentifiers: …. all OK!
  • nonNumericHGNCAccessionNumbers: .. all OK!
  • genesWithoutEnsemblMapping: .x we found 1 problem(s):
    • The following genes with an identifier have been found but that do not have a mapping to Ensembl: 2
• 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: 10
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 1
  • 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: 118
• Number of assertions: 237
• Number of fails: 3

Fails

Genes with identifier but no Ensembl identifier mapping

The following genes with an identifier have been found but that do not have a mapping to Ensembl: 2

http://classic.wikipathways.org/instance/WP5407_r134534 Claudins with datasource InterPro
http://classic.wikipathways.org/instance/WP5407_r134534 F-actin with datasource InterPro

More details at https://www.wikipathways.org/WikiPathwaysCurator/GeneTests/genesWithoutEnsemblMapping

Interactions with Labels

Interactions found that involve Labels: 10

• http://classic.wikipathways.org/instance/WP5407_r134534 “Unknown function” with graphId daa39
• http://classic.wikipathways.org/instance/WP5407_r134534 “DNA interstrand crosslink repair” with graphId d30ef
• http://classic.wikipathways.org/instance/WP5407_r134534 “Nicotinic acteylcholine receptor opens ion channels upon binding” with graphId e1dce
• http://classic.wikipathways.org/instance/WP5407_r134534 “Unknown function” with graphId def18
• http://classic.wikipathways.org/instance/WP5407_r134534 “Transcription” with graphId f1320
• http://classic.wikipathways.org/instance/WP5407_r134534 “Unknown function” with graphId b0ce3
• http://classic.wikipathways.org/instance/WP5407_r134534 “Unknown function” with graphId ab10a
• http://classic.wikipathways.org/instance/WP5407_r134534 “Unknown function” with graphId b9cd7
• http://classic.wikipathways.org/instance/WP5407_r134534 “Unknown function” with graphId b85ea
• http://classic.wikipathways.org/instance/WP5407_r134534 “Unknown function” with graphId cae24

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

Possible MIM translocation

Interactions between identical nodes: 1

• http://classic.wikipathways.org/instance/WP5407_r134534 http://rdf.wikipathways.org/Pathway/WP5407_r134534/WP/Interaction/id42b23baf “Zn2+” (https://identifiers.org/chebi/CHEBI:27363) and Zn2+” (https://identifiers.org/chebi/CHEBI:27363)

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