wikipathways-collection

WikiPathways WP2533

• WikiPathways: WP2533 (classic)
• Species: Homo sapiens
• Scholia: WP2533

  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 5 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!
  • UnconnectedPoints: .x we found 1 problem(s):
    • Interactions with unconnected points: 11
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 4
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 15 tests OK!
• OudatedDataSourcesTests: all 24 tests OK!
• PathwayTests: all 8 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• UniProtTests: all 5 tests OK!
• UnicodeTests
  • water: .x we found 1 problem(s):
    • Metabolite can use H₂O instead of H2O: 1
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 21
• Number of tests: 122
• Number of assertions: 245
• Number of fails: 4

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 6

• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/DataNode/b1e34 (1,2-diacyl-sn-glycero-3-phospho-(1’-sn-glycero-phosphate) (PGP))
• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/DataNode/ef20e (Acyl group)
• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/DataNode/e8b46 (H2O)
• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/DataNode/a5f9b (O2 + NADH + H+)
• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/DataNode/af0fe (PPi)
• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/DataNode/b9d3a (Pi)

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

Interactions with unconnected points

Interactions with unconnected points: 11

• http://classic.wikipathways.org/instance/WP2533_r126497

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

Possible MIM translocation

Interactions between identical nodes: 4

• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/WP/Interaction/ccbb7 “1-alkyl-2-acyl-sn-glycero-3-phosphocholine (Plasmanylcholine)” (https://identifiers.org/chebi/CHEBI:36702) and 1-alkyl-2-acyl-sn-glycero-3-phosphocholine (Plasmanylcholine)” (https://identifiers.org/chebi/CHEBI:36702)
• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/WP/Interaction/ccbb7 “1-alkyl-2-acyl-sn-glycero-3-phosphocholine (Plasmanylcholine)” (https://identifiers.org/chebi/CHEBI:36702) and 1-alkyl-sn-glycero-3-phosphocholine (Lyso PAF)” (https://identifiers.org/chebi/CHEBI:36702)
• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/WP/Interaction/ccbb7 “1-alkyl-sn-glycero-3-phosphocholine (Lyso PAF)” (https://identifiers.org/chebi/CHEBI:36702) and 1-alkyl-2-acyl-sn-glycero-3-phosphocholine (Plasmanylcholine)” (https://identifiers.org/chebi/CHEBI:36702)
• http://classic.wikipathways.org/instance/WP2533_r126497 http://rdf.wikipathways.org/Pathway/WP2533_r126497/WP/Interaction/ccbb7 “1-alkyl-sn-glycero-3-phosphocholine (Lyso PAF)” (https://identifiers.org/chebi/CHEBI:36702) and 1-alkyl-sn-glycero-3-phosphocholine (Lyso PAF)” (https://identifiers.org/chebi/CHEBI:36702)

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

Water chemical formula can use Unicode

Metabolite can use H₂O instead of H2O: 1

* [http://classic.wikipathways.org/instance/WP2533_r126497](http://classic.wikipathways.org/instance/WP2533_r126497)

More details at https://www.wikipathways.org/WikiPathwaysCurator/UnicodeTests/water