sr24-curation

WikiPathways WP5507

• WikiPathways: WP5507 (classic)
• Species: Homo sapiens
• Scholia: WP5507

  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: 8
  • missingHGNC: .. all OK!
• DataNodesTests: all 5 tests OK!
• EnsemblTests: all 5 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBMetabolitesTests: all 2 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• IEMPathwayTests
  • allMetabolitesInteract: .x we found 1 problem(s):
    • Found metabolites without interaction: 1
  • metabolicConversions: .. all OK!
  • catalystsWithCommonDataSource: .. all OK!
  • metabolicConversionIdentifiersCommon: .. all OK!
  • diseasesHaveIdentifiers: .. all OK!
  • omimIdentifiers: .. all 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: 2
  • 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 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 15 tests OK!

Summary

• Number of test classes: 23
• Number of tests: 140
• Number of assertions: 281
• Number of fails: 3

Fails

Interactions without references

Interactions without literature references: 8

• http://classic.wikipathways.org/instance/WP5507_r136173 -> http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/idfd2ccf14
• http://classic.wikipathways.org/instance/WP5507_r136173 -> http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/idf19b1116
• http://classic.wikipathways.org/instance/WP5507_r136173 -> http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/e5ac7
• http://classic.wikipathways.org/instance/WP5507_r136173 -> http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/e7974
• http://classic.wikipathways.org/instance/WP5507_r136173 -> http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/idb392db48
• http://classic.wikipathways.org/instance/WP5507_r136173 -> http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/e62f3
• http://classic.wikipathways.org/instance/WP5507_r136173 -> http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/id44d726aa
• http://classic.wikipathways.org/instance/WP5507_r136173 -> http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/id82ed4a58

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

All metabolites are involved in interactions

Found metabolites without interaction: 1

• https://identifiers.org/wikipathways/WP5507 has an metabolite not linked to an interaction: H+

More details at https://www.wikipathways.org/WikiPathwaysCurator/IEMPathwayTests/allMetabolitesInteract

Possible MIM translocation

Interactions between identical nodes: 2

• http://classic.wikipathways.org/instance/WP5507_r136173 http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/e5ac7 “aspartate” (https://identifiers.org/chebi/CHEBI:29995) and aspartate” (https://identifiers.org/chebi/CHEBI:29995)
• http://classic.wikipathways.org/instance/WP5507_r136173 http://rdf.wikipathways.org/Pathway/WP5507_r136173/WP/Interaction/e5ac7 “glutamate” (https://identifiers.org/pubchem.compound/33032) and glutamate” (https://identifiers.org/pubchem.compound/33032)

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