wikipathways-collection

WikiPathways WP534

• WikiPathways: WP534 (classic)
• Species: Homo sapiens
• Scholia: WP534

  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: all 6 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: .. all OK!
  • UnconnectedPoints: .. all OK!
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 7
  • 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 11 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• Sec2PriProjectTests
  • outdatedHGNCSymbol: .. all OK!
  • outdatedHGNCAccessionNumber: .. all OK!
  • outdatedNCBIIdentifiers: .. all OK!
  • outdatedChEBIIdentifiers: .. all OK!
  • outdatedHMDBIdentifiers: .x we found 1 problem(s):
    • Old HMDB identifiers detected: 1
  • outdatedUniProtKBIdentifiers2: .. all OK!
• UniProtTests: all 5 tests OK!
• UnicodeTests: all 16 tests OK!
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 22
• Number of tests: 147
• Number of assertions: 293
• Number of fails: 2

Fails

Possible MIM translocation

Interactions between identical nodes: 7

• http://classic.wikipathways.org/instance/WP534_r137112 http://rdf.wikipathways.org/Pathway/WP534_r137112/WP/Interaction/b2208_1 “Malate” (https://identifiers.org/hmdb/HMDB0000744) and Malate” (https://identifiers.org/hmdb/HMDB0000744)
• http://classic.wikipathways.org/instance/WP534_r137112 http://rdf.wikipathways.org/Pathway/WP534_r137112/WP/Interaction/e00b1_1 “Aspartate” (https://identifiers.org/hmdb/HMDB0000191) and Aspartate” (https://identifiers.org/hmdb/HMDB0000191)
• http://classic.wikipathways.org/instance/WP534_r137112 http://rdf.wikipathways.org/Pathway/WP534_r137112/WP/Interaction/b2208_2 “Malate” (https://identifiers.org/hmdb/HMDB0000744) and Malate” (https://identifiers.org/hmdb/HMDB0000744)
• http://classic.wikipathways.org/instance/WP534_r137112 http://rdf.wikipathways.org/Pathway/WP534_r137112/WP/Interaction/ba365 “Glucose” (https://identifiers.org/hmdb/HMDB0000122) and Glucose” (https://identifiers.org/hmdb/HMDB0000122)
• http://classic.wikipathways.org/instance/WP534_r137112 http://rdf.wikipathways.org/Pathway/WP534_r137112/WP/Interaction/a7962 “Pyruvate” (https://identifiers.org/hmdb/HMDB0000243) and Pyruvate” (https://identifiers.org/hmdb/HMDB0000243)
• http://classic.wikipathways.org/instance/WP534_r137112 http://rdf.wikipathways.org/Pathway/WP534_r137112/WP/Interaction/ea8dd “Glucose” (https://identifiers.org/hmdb/HMDB0000122) and Glucose” (https://identifiers.org/hmdb/HMDB0000122)
• http://classic.wikipathways.org/instance/WP534_r137112 http://rdf.wikipathways.org/Pathway/WP534_r137112/WP/Interaction/e00b1_2 “Aspartate” (https://identifiers.org/hmdb/HMDB0000191) and Aspartate” (https://identifiers.org/hmdb/HMDB0000191)

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

HMDB identifier has been retracted

Old HMDB identifiers detected: 1

• http://classic.wikipathways.org/instance/WP534_r137112 Malate has HMDB ID HMDB0000744 but has been replaced by HMDB0000156

More details at https://www.wikipathways.org/WikiPathwaysCurator/Sec2PriProjectTests/outdatedHMDBIdentifiers