wikipathways-collection

WikiPathways WP515

• WikiPathways: WP515 (classic)
• Species: Saccharomyces cerevisiae

  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: .. all OK!
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 14
  • 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: 2

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/WP515_r117299 PCK1 with datasource SGD
http://classic.wikipathways.org/instance/WP515_r117299 GLK1 with datasource SGD

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

Possible MIM translocation

Interactions between identical nodes: 14

• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/d024d_2 “Pyruvate” (https://identifiers.org/hmdb/HMDB0000243) and Pyruvate” (https://identifiers.org/hmdb/HMDB0000243)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/d7b29_2 “Malate” (https://identifiers.org/cas/6915-15-7) and Malate” (https://identifiers.org/cas/6915-15-7)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/d024d_1 “Pyruvate” (https://identifiers.org/hmdb/HMDB0000243) and Pyruvate” (https://identifiers.org/hmdb/HMDB0000243)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/bfc87_2 “Acetaldehyde” (https://identifiers.org/cas/75-07-0) and Acetaldehyde” (https://identifiers.org/cas/75-07-0)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/e991d_2 “Acetyl-CoA” (https://identifiers.org/cas/72-89-9) and Acetyl-CoA” (https://identifiers.org/cas/72-89-9)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/bfc87_1 “Acetaldehyde” (https://identifiers.org/cas/75-07-0) and Acetaldehyde” (https://identifiers.org/cas/75-07-0)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/b0412_2 “Ethanol” (https://identifiers.org/cas/64-17-5) and Ethanol” (https://identifiers.org/cas/64-17-5)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/e991d_1 “Acetyl-CoA” (https://identifiers.org/cas/72-89-9) and Acetyl-CoA” (https://identifiers.org/cas/72-89-9)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/b1171_2 “Acetate” (https://identifiers.org/cas/64-19-7) and Acetate” (https://identifiers.org/cas/64-19-7)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/b1171_1 “Acetate” (https://identifiers.org/cas/64-19-7) and Acetate” (https://identifiers.org/cas/64-19-7)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/e2ec5_2 “Oxaloacetate” (https://identifiers.org/hmdb/HMDB0000223) and Oxaloacetate” (https://identifiers.org/hmdb/HMDB0000223)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/d7b29_1 “Malate” (https://identifiers.org/cas/6915-15-7) and Malate” (https://identifiers.org/cas/6915-15-7)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/e2ec5_1 “Oxaloacetate” (https://identifiers.org/hmdb/HMDB0000223) and Oxaloacetate” (https://identifiers.org/hmdb/HMDB0000223)
• http://classic.wikipathways.org/instance/WP515_r117299 http://rdf.wikipathways.org/Pathway/WP515_r117299/WP/Interaction/b0412_1 “Ethanol” (https://identifiers.org/cas/64-17-5) and Ethanol” (https://identifiers.org/cas/64-17-5)

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