wikipathways-collection

WikiPathways WP3959

• WikiPathways: WP3959 (classic)
• Species: Homo sapiens
• Scholia: WP3959

  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: 6
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 13 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: .. all OK!
  • noProteinProteinConversions: .x we found 1 problem(s):
    • Unexpected protein-protein conversions: 2
  • 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 8 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: 99
• Number of assertions: 200
• Number of fails: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 6

http://classic.wikipathways.org/instance/WP3959_r118468 http://rdf.wikipathways.org/Pathway/WP3959_r118468/DataNode/bb119 (Cell Survival)
http://classic.wikipathways.org/instance/WP3959_r118468 http://rdf.wikipathways.org/Pathway/WP3959_r118468/DataNode/f082f (Cell cycle arrest
at G1 & G2)
http://classic.wikipathways.org/instance/WP3959_r118468 http://rdf.wikipathways.org/Pathway/WP3959_r118468/DataNode/d533b (Cohesin)
http://classic.wikipathways.org/instance/WP3959_r118468 http://rdf.wikipathways.org/Pathway/WP3959_r118468/DataNode/bfb0d (Damage Processing)
http://classic.wikipathways.org/instance/WP3959_r118468 http://rdf.wikipathways.org/Pathway/WP3959_r118468/DataNode/eba1c (NFkB activation)
http://classic.wikipathways.org/instance/WP3959_r118468 http://rdf.wikipathways.org/Pathway/WP3959_r118468/DataNode/c192d (mRNA nonsense-mediated
decay (NMD))

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 1

http://classic.wikipathways.org/instance/WP3959_r118468 "DNA DSBs" with graphId d24cf

InteractionTests.noProteinProteinConversions

Unexpected protein-protein conversions: 2

Homo sapiens http://classic.wikipathways.org/instance/WP3959_r118468 -> https://identifiers.org/uniprot/O14727 https://identifiers.org/uniprot/P55211 http://rdf.wikipathways.org/Pathway/WP3959_r118468/WP/Interaction/id59d277cc
Homo sapiens http://classic.wikipathways.org/instance/WP3959_r118468 -> https://identifiers.org/uniprot/Q13315 https://identifiers.org/uniprot/Q9Y4K3 http://rdf.wikipathways.org/Pathway/WP3959_r118468/WP/Interaction/idb7a51c21