imd-pathway-curation

WikiPathways WP4259

• WikiPathways: WP4259 (classic)
• Species: Homo sapiens
• Scholia: WP4259

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests: all 5 tests OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBMetabolitesTests: all 1 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: .x we found 1 problem(s):
    • Likely diseases without identifiers: 1
  • omimIdentifiers: .x we found 1 problem(s):
    • OMIM links should start with “https://omim.org/entry/”: 12
• InteractionTests: all 8 tests OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 tests OK!
• OudatedDataSourcesTests: all 9 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: 22
• Number of tests: 120
• Number of assertions: 241
• Number of fails: 3

Fails

IEMPathwayTests.allMetabolitesInteract

Found metabolites without interaction: 1

https://identifiers.org/wikipathways/WP4259 has an metabolite not linked to an interaction: CO2

IEMPathwayTests.diseasesHaveIdentifiers

Likely diseases without identifiers: 1

https://identifiers.org/wikipathways/WP4259 "FTHFI" does not have an identifier

IEMPathwayTests.omimIdentifiers

OMIM links should start with “https://omim.org/entry/”: 12

https://identifiers.org/wikipathways/WP4259 "QDPRD" has unexpected OMIM href: https://www.omim.org/261630
https://identifiers.org/wikipathways/WP4259 "MTHFS deficiency" has unexpected OMIM href: https://www.omim.org/618367
https://identifiers.org/wikipathways/WP4259 "Heriditary folate  malabsorption" has unexpected OMIM href: https://www.omim.org/229050
https://identifiers.org/wikipathways/WP4259 "MTHFD1 deficiency" has unexpected OMIM href: https://www.omim.org/172460
https://identifiers.org/wikipathways/WP4259 "FTHFDH" has unexpected OMIM href: https://www.omim.org/613584
https://identifiers.org/wikipathways/WP4259 "Reduced folate  carrier deficiency" has unexpected OMIM href: https://www.omim.org/601775
https://identifiers.org/wikipathways/WP4259 "Folate receptor alpha deficiency" has unexpected OMIM href: https://www.omim.org/613068
https://identifiers.org/wikipathways/WP4259 "DHFR deficiency" has unexpected OMIM href: https://www.omim.org/613839
https://identifiers.org/wikipathways/WP4259 "MTHFR deficiency" has unexpected OMIM href: https://www.omim.org/236250
https://identifiers.org/wikipathways/WP4259 "ATIC  Deficiency" has unexpected OMIM href: https://www.omim.org/608688
https://identifiers.org/wikipathways/WP4259 "NEDCASB" has unexpected OMIM href: https://www.omim.org/619121
https://identifiers.org/wikipathways/WP4259 "FIGLU-uria" has unexpected OMIM href: https://www.omim.org/229100