wikipathways-collection

WikiPathways WP4629

• WikiPathways: WP4629 (classic)
• Species: Homo sapiens
• Scholia: WP4629

  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: 5
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 2
  • 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: 25
  • 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: 5

• http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/DataNode/e55fb (ATPase)
• http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/DataNode/be553 (MAS)
• http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/DataNode/d1839 (Metabolite)
• http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/DataNode/e0e1d (Metabolite)
• http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/DataNode/b4253 (OXPHOS)

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

Datanodes of unknown type

The following DataNodes have Unknown @Type: 2

• http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/DataNode/be553 (MAS)
• http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/DataNode/b4253 (OXPHOS)

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

Possible MIM translocation

Interactions between identical nodes: 25

http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/ea8dd_2 "GLUe" (https://identifiers.org/hmdb/HMDB0000122) and 
GLUe" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/ea8dd_2 "GLUe" (https://identifiers.org/hmdb/HMDB0000122) and 
GLU" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/ea8dd_2 "GLU" (https://identifiers.org/hmdb/HMDB0000122) and 
GLUe" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/ea8dd_2 "GLU" (https://identifiers.org/hmdb/HMDB0000122) and 
GLU" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id1aba2109 "PYR" (https://identifiers.org/hmdb/HMDB0000243) and 
PYR" (https://identifiers.org/hmdb/HMDB0000243)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id4492be65_2 "LACe" (https://identifiers.org/hmdb/HMDB0000190) and 
LACe" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id4492be65_2 "LACe" (https://identifiers.org/hmdb/HMDB0000190) and 
LAC" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id4492be65_2 "LAC" (https://identifiers.org/hmdb/HMDB0000190) and 
LACe" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id4492be65_2 "LAC" (https://identifiers.org/hmdb/HMDB0000190) and 
LAC" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/ea8dd_1 "GLUe" (https://identifiers.org/hmdb/HMDB0000122) and 
GLUe" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/ea8dd_1 "GLUe" (https://identifiers.org/hmdb/HMDB0000122) and 
GLU" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/ea8dd_1 "GLU" (https://identifiers.org/hmdb/HMDB0000122) and 
GLUe" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/ea8dd_1 "GLU" (https://identifiers.org/hmdb/HMDB0000122) and 
GLU" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id38db71f5_1 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id38db71f5_1 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id38db71f5_1 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id38db71f5_1 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id38db71f5_2 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id38db71f5_2 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id38db71f5_2 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id38db71f5_2 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id4492be65_1 "LACe" (https://identifiers.org/hmdb/HMDB0000190) and 
LACe" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id4492be65_1 "LACe" (https://identifiers.org/hmdb/HMDB0000190) and 
LAC" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id4492be65_1 "LAC" (https://identifiers.org/hmdb/HMDB0000190) and 
LACe" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4629_r134388 http://rdf.wikipathways.org/Pathway/WP4629_r134388/WP/Interaction/id4492be65_1 "LAC" (https://identifiers.org/hmdb/HMDB0000190) and 
LAC" (https://identifiers.org/hmdb/HMDB0000190)

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