wikipathways-collection

WikiPathways WP5477

• WikiPathways: WP5477 (classic)
• Species: Homo sapiens
• Scholia: WP5477

  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: 15
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 13
  • 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: .. all OK!
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 1
  • 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: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 15

• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/d11f4 (Aerobic cell metabolism)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/deab3 (Angiogenesis)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/f1c7e (Anrti-apoptotic gene activation)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/f930b (Anti-oxidants)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/ac6ab (Apoptosis)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/a7e09 (Cell-cycle progression)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/b8f73 (Differentiation )
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/da5f0 (Environmental contaminants)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/d48e1 (IkB ubiquitination)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/d81fc (Inflammation)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/ff8cd (Inflammation)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/e91a6 (Migration/invasion)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/e5477 (Radiation protective agents)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/e3824 (Redox sensetive kinases, transcription factors & receptors)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/e51fe (c-IAP)

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

Datanodes of unknown type

The following DataNodes have Unknown @Type: 13

• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/d11f4 (Aerobic cell metabolism)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/deab3 (Angiogenesis)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/f1c7e (Anrti-apoptotic gene activation)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/f930b (Anti-oxidants)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/ac6ab (Apoptosis)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/a7e09 (Cell-cycle progression)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/b8f73 (Differentiation )
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/da5f0 (Environmental contaminants)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/d81fc (Inflammation)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/ff8cd (Inflammation)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/e91a6 (Migration/invasion)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/e5477 (Radiation protective agents)
• http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/DataNode/e3824 (Redox sensetive kinases, transcription factors & receptors)

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

Possible MIM translocation

Interactions between identical nodes: 1

http://classic.wikipathways.org/instance/WP5477_r135819 http://rdf.wikipathways.org/Pathway/WP5477_r135819/WP/Interaction/idc538e401 "NF-kB" (https://identifiers.org/ensembl/ENSG00000109320) and 
NF-kB" (https://identifiers.org/ensembl/ENSG00000109320)

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