wikipathways-collection

WikiPathways WP5402

• WikiPathways: WP5402 (classic)
• Species: Homo sapiens
• Scholia: WP5402

  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: 2
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 5 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
  • UnconnectedPoints: .x we found 1 problem(s):
    • Interactions with unconnected points: 1
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 3
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all 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 8 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• UniProtTests: all 5 tests OK!
• UnicodeTests
  • water: .x we found 1 problem(s):
    • Metabolite can use H₂O instead of H2O: 1
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 21
• Number of tests: 122
• Number of assertions: 245
• Number of fails: 5

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 2

• http://classic.wikipathways.org/instance/WP5402_r134532 http://rdf.wikipathways.org/Pathway/WP5402_r134532/DataNode/ca31d (PKA)
• http://classic.wikipathways.org/instance/WP5402_r134532 http://rdf.wikipathways.org/Pathway/WP5402_r134532/DataNode/da084 (PKC)

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

Interactions with Labels

Interactions found that involve Labels: 7

• http://classic.wikipathways.org/instance/WP5402_r134532 “Unknown function” with graphId ba677
• http://classic.wikipathways.org/instance/WP5402_r134532 “Unknown function” with graphId e941f
• http://classic.wikipathways.org/instance/WP5402_r134532 “Spermatogenesis” with graphId b7f5d
• http://classic.wikipathways.org/instance/WP5402_r134532 “Unknown function possibly involved in T-cell signaling” with graphId d2d6d
• http://classic.wikipathways.org/instance/WP5402_r134532 “Unknown function likely microtubule binding” with graphId ac4da
• http://classic.wikipathways.org/instance/WP5402_r134532 “Unknown function” with graphId b68fc
• http://classic.wikipathways.org/instance/WP5402_r134532 “Unknown function” with graphId b8f5c

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

Interactions with unconnected points

Interactions with unconnected points: 1

• http://classic.wikipathways.org/instance/WP5402_r134532

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

Possible MIM translocation

Interactions between identical nodes: 3

• http://classic.wikipathways.org/instance/WP5402_r134532 http://rdf.wikipathways.org/Pathway/WP5402_r134532/WP/Interaction/idb12b5f83 “Ca2+” (https://identifiers.org/chebi/CHEBI:29108) and Ca2+” (https://identifiers.org/chebi/CHEBI:29108)
• http://classic.wikipathways.org/instance/WP5402_r134532 http://rdf.wikipathways.org/Pathway/WP5402_r134532/WP/Interaction/id406e906e “K+” (https://identifiers.org/chebi/CHEBI:29103) and K+” (https://identifiers.org/chebi/CHEBI:29103)
• http://classic.wikipathways.org/instance/WP5402_r134532 http://rdf.wikipathways.org/Pathway/WP5402_r134532/WP/Interaction/idd48a4b6a “H+” (https://identifiers.org/chebi/CHEBI:15378) and H+” (https://identifiers.org/chebi/CHEBI:15378)

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

Water chemical formula can use Unicode

Metabolite can use H₂O instead of H2O: 1

* [http://classic.wikipathways.org/instance/WP5402_r134532](http://classic.wikipathways.org/instance/WP5402_r134532)

More details at https://www.wikipathways.org/WikiPathwaysCurator/UnicodeTests/water