wikipathways-collection

WikiPathways WP3604

• WikiPathways: WP3604 (classic)
• Species: Homo sapiens
• Scholia: WP3604

  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: 10
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all 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: .x we found 1 problem(s):
    • Interactions with unconnected points: 13
  • possibleTranslocations: .. all OK!
  • 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: 2
  • 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: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 10

• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/b2b59 (2-dehydro-l-gulonolactone)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/d605d (2-methylheptanone)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/d50e1 (2-oxo-4-hydroxy-5-aminovaleric acid)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/d9680 (3a,20a,21-Trihydroxy-5b-pregnan-11-one)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/b58fd (5b-pregnane-3,20-dione)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/fea7c (Ergosta-5,7,22,24,(28)-tetraen-3b-ol)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/daeab (Sedoheptulose-1,7-biphosphate)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/bb60e (b-acetyl-glucosaminide)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/ec9d6 (delta-7,24-Cholestadien-3b-ol)
• http://classic.wikipathways.org/instance/WP3604_r117661 http://rdf.wikipathways.org/Pathway/WP3604_r117661/DataNode/c1632 (isocaproic aldehyde)

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

Interactions with unconnected points

Interactions with unconnected points: 13

• http://classic.wikipathways.org/instance/WP3604_r117661

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

HMDB identifier has been retracted

Old HMDB identifiers detected: 2

• http://classic.wikipathways.org/instance/WP3604_r117661 3a,7a,12a-Trihydroxy-5b-cholestanoic acid has HMDB ID HMDB0003873 but has been replaced by HMDB0000601
• http://classic.wikipathways.org/instance/WP3604_r117661 4-Hydroxy-L-proline has HMDB ID HMDB0006055 but has been replaced by HMDB0000725

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