imd-pathway-curation

WikiPathways WP4519

• WikiPathways: WP4519
• Scholia: WP4519
• WPRDF file: wp/Human/WP4519.ttl
• GPMLRDF file: wp/gpml/Human/WP4519.ttl
• SBML file: sbml/WP4519.sbml (SVG) (conversion notes)

Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 4 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests: all 4 tests OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 3 tests OK!
• GeneralTests: all 13 tests OK!
• HMDBMetabolitesTests: all 1 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• IEMPathwayTests
  • allMetabolitesInteract: .x we found 1 problem(s):
    • Found metabolites without interaction: 3
  • 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: 1
  • 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 7 tests OK!
• PathwayTests: all 6 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 4 tests OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 15 tests OK!

Summary

• Number of test classes: 22
• Number of tests: 110
• Number of assertions: 220
• Number of fails: 2

Fails

IEMPathwayTests.allMetabolitesInteract

Found metabolites without interaction: 3

https://identifiers.org/wikipathways/WP4519 has an metabolite not linked to an interaction: NADH
https://identifiers.org/wikipathways/WP4519 has an metabolite not linked to an interaction: NAD+
https://identifiers.org/wikipathways/WP4519 has an metabolite not linked to an interaction: H+

InteractionTests.possibleTranslocations

Interactions between identical nodes: 1

http://www.wikipathways.org/instance/WP4519_r124524 http://rdf.wikipathways.org/Pathway/WP4519_r124524/WP/Interaction/dd390 "NADPH" (https://identifiers.org/chebi/CHEBI:16474) and 
NADPH+" (https://identifiers.org/hmdb/HMDB0000221)

More details at https://wikipathways.github.io/WikiPathwaysCurator/InteractionTests/possibleTranslocations