wikipathways-collection

WikiPathways WP5150

• WikiPathways: WP5150 (classic)
• Species: Homo sapiens
• Scholia: WP5150

  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: 2
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 8
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 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: 1
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 3
  • 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: 117
• Number of assertions: 235
• Number of fails: 4

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 2

• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/e73eb (Alcohol intake)
• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/e23dd (Low methionine intake)

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

Datanodes of unknown type

The following DataNodes have Unknown @Type: 8

• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/e73eb (Alcohol intake)
• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/cfbe7 (Caffeine)
• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/c6fd7 (Cell proliferation)
• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/a47f9 (DNA synthesis)
• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/e23dd (Low methionine intake)
• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/b99c4 (Protein synthesis)
• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/c5639 (Spina bifida)
• http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/DataNode/ce95c (Tobacco Smoke Pollution)

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 1

http://classic.wikipathways.org/instance/WP5150_r134569 "Folic acid shortage" with graphId d18eb

Possible MIM translocation

Interactions between identical nodes: 3

http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/WP/Interaction/e8ed3 "Methionine" (https://identifiers.org/chebi/CHEBI:16643) and 
Methionine" (https://identifiers.org/chebi/CHEBI:16643)
http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/WP/Interaction/id735c4dc4 "Homocysteine" (https://identifiers.org/hmdb/HMDB0000742) and 
Homocysteine" (https://identifiers.org/hmdb/HMDB0000742)
http://classic.wikipathways.org/instance/WP5150_r134569 http://rdf.wikipathways.org/Pathway/WP5150_r134569/WP/Interaction/idc2833ac2 "Methylcobalamin" (https://identifiers.org/hmdb/HMDB0002274) and 
Methylcobalamin" (https://identifiers.org/hmdb/HMDB0002274)

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