sr24-curation

WikiPathways WP4156

• WikiPathways: WP4156 (classic)
• Species: Homo sapiens
• Scholia: WP4156

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• CovidDiseaseMapsTests
  • interactionsWithoutReferences: .x we found 1 problem(s):
    • Interactions without literature references: 32
  • missingHGNC: .. all OK!
• DataNodesTests: all 5 tests OK!
• EnsemblTests: all 5 tests OK!
• GeneTests: all 5 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBMetabolitesTests: all 2 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• IEMPathwayTests: all 6 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: 1
  • 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
  • metaboliteAlsoOtherType: .. all OK!
  • casNumbersNotMarkedAsMetabolite: .. all OK!
  • chemspiderIDsNotMarkedAsMetabolite: .. all OK!
  • HMDBIDsNotMarkedAsMetabolite: .. all OK!
  • KEGGIDsNotMarkedAsMetabolite: .. all OK!
  • metabolitesWithAnEnsembleID: .. all OK!
  • metabolitesWithAnEntrezGeneID: .. all OK!
  • metabolitesWithDbButNoIdentifier: .. all OK!
  • metabolitesWithIdentifierButNoDb: .. all OK!
  • ChEBIIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemSubstanceIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemIDsNotNumbers: .. all OK!
  • PubChemSubstanceIDsNotNumbers: .. all OK!
  • tooManyInChIKeys: .x we found 1 problem(s):
    • Non-zero count of metabolites with more than one InChIKey: 1
  • achiralAminoAcids: .. all OK!
• OudatedDataSourcesTests: all 24 tests OK!
• PathwayTests: all 11 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• UniProtTests: all 5 tests OK!
• UnicodeTests: all 2 tests OK!
• WikidataTests: all 15 tests OK!

Summary

• Number of test classes: 24
• Number of tests: 149
• Number of assertions: 299
• Number of fails: 4

Fails

Interactions without references

Interactions without literature references: 32

• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id3c540fa2
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id1eb5096c
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idb70c8a5b
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idc3ff3f1c
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id4e503ef6_2
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id4876ba83
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id210ea6b1
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id68d7effb
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id3c385ad3
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/ideb9fcede
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/ComplexBinding/a69e0
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idd348c017
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id277f5b5a
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id9c5562ef
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id1826379
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/c454a
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id7326c6e
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id9ef7cfc3
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idd28db677
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id6b39a446
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id93f579bc
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/ida9b8e551
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/iddf08bbd6
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idfc3d6f39
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/cefac
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idcb6f2385
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idb7ed86f6
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/ComplexBinding/a765a
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/fe1d8
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/id5b2cfbca
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idab741d7e
• http://classic.wikipathways.org/instance/WP4156_r137438 -> http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idb61b60ed

More details at https://www.wikipathways.org/WikiPathwaysCurator/CovidDiseaseMapsTests/interactionsWithoutReferences

Interactions with unconnected points

Interactions with unconnected points: 1

• http://classic.wikipathways.org/instance/WP4156_r137438

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

Possible MIM translocation

Interactions between identical nodes: 1

• http://classic.wikipathways.org/instance/WP4156_r137438 http://rdf.wikipathways.org/Pathway/WP4156_r137438/WP/Interaction/idd28db677 “Phe” (https://identifiers.org/chebi/CHEBI:17295) and Phenyl-alanine” (https://identifiers.org/wikidata/Q170545)

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

Too many InChIKeys for the used identifier

Non-zero count of metabolites with more than one InChIKey: 1

• http://classic.wikipathways.org/instance/WP4156_r137438 has: q-BH2 (CHEBI:43120) with InChIKeys: ZHQJVZLJDXWFFX-UHFFFAOYSA-N, ZHQJVZLJDXWFFX-RPDRRWSUSA-N

More details at https://www.wikipathways.org/WikiPathwaysCurator/MetabolitesTests/tooManyInChIKeys