wikipathways-collection

WikiPathways WP4628

• WikiPathways: WP4628 (classic)
• Species: Homo sapiens
• Scholia: WP4628

  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: 14
  • 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 13 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: 51
  • 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 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: 14

http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/cca15 (ALT)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/ff293 (ASP)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/e55fb (ATPase)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/fa2b1 (GPHOS)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/b1484 (GPS)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/c7ada (GRPDH)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/cd89d (GSYN)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/daa73 (MAL)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/be553 (MAS)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/b4253 (OXPHOS)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/eb61b (PDH)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/c4f35 (PHGDH)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/a279b (SPT)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/bb18c (Serine 
biosynthesis)

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

DataNodesTests.unknownTypes

The following DataNodes have Unknown @Type: 2

http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/be553 (MAS)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/DataNode/b4253 (OXPHOS)

Possible MIM translocation

Interactions between identical nodes: 51

http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id7a6c03b4_1 "SER" (https://identifiers.org/hmdb/HMDB0000187) and 
SER" (https://identifiers.org/hmdb/HMDB0000187)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id7a6c03b4_1 "SER" (https://identifiers.org/hmdb/HMDB0000187) and 
GLY" (https://identifiers.org/hmdb/HMDB0000187)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id7a6c03b4_1 "GLY" (https://identifiers.org/hmdb/HMDB0000187) and 
SER" (https://identifiers.org/hmdb/HMDB0000187)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id7a6c03b4_1 "GLY" (https://identifiers.org/hmdb/HMDB0000187) and 
GLY" (https://identifiers.org/hmdb/HMDB0000187)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id99a2604b "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id4492be65_2 "LACe" (https://identifiers.org/hmdb/HMDB0000190) and 
LACe" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id4492be65_2 "LACe" (https://identifiers.org/hmdb/HMDB0000190) and 
LAC" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id4492be65_2 "LAC" (https://identifiers.org/hmdb/HMDB0000190) and 
LACe" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id4492be65_2 "LAC" (https://identifiers.org/hmdb/HMDB0000190) and 
LAC" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_2 "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id7a6c03b4_2 "SER" (https://identifiers.org/hmdb/HMDB0000187) and 
SER" (https://identifiers.org/hmdb/HMDB0000187)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id7a6c03b4_2 "SER" (https://identifiers.org/hmdb/HMDB0000187) and 
GLY" (https://identifiers.org/hmdb/HMDB0000187)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id7a6c03b4_2 "GLY" (https://identifiers.org/hmdb/HMDB0000187) and 
SER" (https://identifiers.org/hmdb/HMDB0000187)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id7a6c03b4_2 "GLY" (https://identifiers.org/hmdb/HMDB0000187) and 
GLY" (https://identifiers.org/hmdb/HMDB0000187)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/ea8dd_1 "GLUe" (https://identifiers.org/hmdb/HMDB0000122) and 
GLUe" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/ea8dd_1 "GLUe" (https://identifiers.org/hmdb/HMDB0000122) and 
GLU" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/ea8dd_1 "GLU" (https://identifiers.org/hmdb/HMDB0000122) and 
GLUe" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/ea8dd_1 "GLU" (https://identifiers.org/hmdb/HMDB0000122) and 
GLU" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/ea8dd_2 "GLUe" (https://identifiers.org/hmdb/HMDB0000122) and 
GLUe" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/ea8dd_2 "GLUe" (https://identifiers.org/hmdb/HMDB0000122) and 
GLU" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/ea8dd_2 "GLU" (https://identifiers.org/hmdb/HMDB0000122) and 
GLUe" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/ea8dd_2 "GLU" (https://identifiers.org/hmdb/HMDB0000122) and 
GLU" (https://identifiers.org/hmdb/HMDB0000122)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id4492be65_1 "LACe" (https://identifiers.org/hmdb/HMDB0000190) and 
LACe" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id4492be65_1 "LACe" (https://identifiers.org/hmdb/HMDB0000190) and 
LAC" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id4492be65_1 "LAC" (https://identifiers.org/hmdb/HMDB0000190) and 
LACe" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id4492be65_1 "LAC" (https://identifiers.org/hmdb/HMDB0000190) and 
LAC" (https://identifiers.org/hmdb/HMDB0000190)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "O2" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "O2e" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
O2" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
O2e" (https://identifiers.org/chebi/CHEBI:26689)
http://classic.wikipathways.org/instance/WP4628_r129408 http://rdf.wikipathways.org/Pathway/WP4628_r129408/WP/Interaction/id38db71f5_1 "H2O" (https://identifiers.org/chebi/CHEBI:26689) and 
H2O" (https://identifiers.org/chebi/CHEBI:26689)

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