wikipathways-collection

WikiPathways WP5083

• WikiPathways: WP5083 (classic)
• Species: Homo sapiens
• Scholia: WP5083

  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 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: 2
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 9
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests
  • ChEBIIDsNotMarkedAsMetabolite: .. all OK!
  • HMDBIDsNotMarkedAsMetabolite: .. all OK!
  • KEGGIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemIDsNotNumbers: .. all OK!
  • PubChemSubstanceIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemSubstanceIDsNotNumbers: .. all OK!
  • achiralAminoAcids: .x we found 1 problem(s):
    • Metabolites with ChEBI identifiers of achiral amino acids: 1
  • casNumbersNotMarkedAsMetabolite: .. all OK!
  • chemspiderIDsNotMarkedAsMetabolite: .. all OK!
  • metaboliteAlsoOtherType: .. all OK!
  • metabolitesWithAnEnsembleID: .. all OK!
  • metabolitesWithAnEntrezGeneID: .. all OK!
  • metabolitesWithDbButNoIdentifier: .. all OK!
  • metabolitesWithIdentifierButNoDb: .. all 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: 119
• Number of assertions: 239
• Number of fails: 3

Fails

Interactions with Labels

Interactions found that involve Labels: 2

• http://classic.wikipathways.org/instance/WP5083_r135193 “Mechanical Strength” with graphId ef62c
• http://classic.wikipathways.org/instance/WP5083_r135193 “Spine shrinkage” with graphId bedee

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

Possible MIM translocation

Interactions between identical nodes: 9

• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/a77f1 “glutamate” (https://identifiers.org/chebi/CHEBI:14321) and glutamate” (https://identifiers.org/chebi/CHEBI:14321)
• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/e981f “Glycine” (https://identifiers.org/chebi/CHEBI:15428) and Glycine” (https://identifiers.org/chebi/CHEBI:15428)
• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/e6704 “glucose” (https://identifiers.org/chebi/CHEBI:17234) and glucose” (https://identifiers.org/chebi/CHEBI:17234)
• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/ec10e “Glycine” (https://identifiers.org/chebi/CHEBI:15428) and Glycine” (https://identifiers.org/chebi/CHEBI:15428)
• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/a1698 “D-serine” (https://identifiers.org/chebi/CHEBI:35247) and D-serine” (https://identifiers.org/chebi/CHEBI:35247)
• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/adeb0 “D-serine” (https://identifiers.org/chebi/CHEBI:35247) and D-serine” (https://identifiers.org/chebi/CHEBI:35247)
• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/efe0a “L-serine” (https://identifiers.org/chebi/CHEBI:17115) and L-serine” (https://identifiers.org/chebi/CHEBI:17115)
• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/b20fc “glutamate” (https://identifiers.org/chebi/CHEBI:14321) and glutamate” (https://identifiers.org/chebi/CHEBI:14321)
• http://classic.wikipathways.org/instance/WP5083_r135193 http://rdf.wikipathways.org/Pathway/WP5083_r135193/WP/Interaction/b9a4a “glutamine” (https://identifiers.org/chebi/CHEBI:28300) and glutamine” (https://identifiers.org/chebi/CHEBI:28300)

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

MetabolitesTests.achiralAminoAcids

Metabolites with ChEBI identifiers of achiral amino acids: 1

http://classic.wikipathways.org/instance/WP5083_r135193 glutamine CHEBI:28300