wikipathways-collection

WikiPathways WP5220

• WikiPathways: WP5220 (classic)
• Species: Homo sapiens
• Scholia: WP5220

  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: .. all OK!
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 8
  • 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: 2
  • 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 8 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: 120
• Number of assertions: 241
• Number of fails: 2

Fails

Possible MIM translocation

Interactions between identical nodes: 8

• http://classic.wikipathways.org/instance/WP5220_r134560 http://rdf.wikipathways.org/Pathway/WP5220_r134560/WP/Interaction/idc263b3f5 “citrate” (https://identifiers.org/chebi/CHEBI:133748) and citrate” (https://identifiers.org/chebi/CHEBI:133748)
• http://classic.wikipathways.org/instance/WP5220_r134560 http://rdf.wikipathways.org/Pathway/WP5220_r134560/WP/Interaction/id123c4895 “glutamine” (https://identifiers.org/chebi/CHEBI:28300) and glutamine” (https://identifiers.org/chebi/CHEBI:28300)
• http://classic.wikipathways.org/instance/WP5220_r134560 http://rdf.wikipathways.org/Pathway/WP5220_r134560/WP/Interaction/id311b54ca “Aspartic acid” (https://identifiers.org/chebi/CHEBI:22660) and Aspartic acid” (https://identifiers.org/chebi/CHEBI:22660)
• http://classic.wikipathways.org/instance/WP5220_r134560 http://rdf.wikipathways.org/Pathway/WP5220_r134560/WP/Interaction/id56122b73 “glucose” (https://identifiers.org/chebi/CHEBI:17234) and glucose” (https://identifiers.org/chebi/CHEBI:17234)
• http://classic.wikipathways.org/instance/WP5220_r134560 http://rdf.wikipathways.org/Pathway/WP5220_r134560/WP/Interaction/id5f48e86a “BCAA” (https://identifiers.org/chebi/CHEBI:22918) and BCAA” (https://identifiers.org/chebi/CHEBI:22918)
• http://classic.wikipathways.org/instance/WP5220_r134560 http://rdf.wikipathways.org/Pathway/WP5220_r134560/WP/Interaction/id3f330104 “lactate” (https://identifiers.org/chebi/CHEBI:24996) and lactate” (https://identifiers.org/chebi/CHEBI:24996)
• http://classic.wikipathways.org/instance/WP5220_r134560 http://rdf.wikipathways.org/Pathway/WP5220_r134560/WP/Interaction/idf62c4f03 “BCAA” (https://identifiers.org/chebi/CHEBI:22918) and BCAA” (https://identifiers.org/chebi/CHEBI:22918)
• http://classic.wikipathways.org/instance/WP5220_r134560 http://rdf.wikipathways.org/Pathway/WP5220_r134560/WP/Interaction/id6c561cee “lactate” (https://identifiers.org/chebi/CHEBI:24996) and lactate” (https://identifiers.org/chebi/CHEBI:24996)

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

Identifier used of a amino acid with undefined stereochemistry

Metabolites with ChEBI identifiers of achiral amino acids: 2

http://classic.wikipathways.org/instance/WP5220_r134560 Aspartic acid CHEBI:22660
http://classic.wikipathways.org/instance/WP5220_r134560 glutamine CHEBI:28300

More details at https://www.wikipathways.org/WikiPathwaysCurator/MetabolitesTests/achiralAminoAcids