sr24-curation

WikiPathways WP561

• WikiPathways: WP561 (classic)
• Species: Homo sapiens
• Scholia: WP561

  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: 14
  • 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: 4
  • metabolicConversions: .. all OK!
  • catalystsWithCommonDataSource: .. all OK!
  • metabolicConversionIdentifiersCommon: .. all OK!
  • diseasesHaveIdentifiers: .. all OK!
  • omimIdentifiers: .. all OK!
• InteractionTests: all 8 tests 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
• 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

CovidDiseaseMapsTests.interactionsWithoutReferences

Interactions without literature references: 14

http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/e2bdd
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/bacc2
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/ee591
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/d64e8
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/ddd8c
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/d73d0
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/e2071
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/a6b7b
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/e30ff
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/eb348
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/b0495
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/eead2
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/e81fa
http://classic.wikipathways.org/instance/WP561_r124939 -> http://rdf.wikipathways.org/Pathway/WP561_r124939/WP/Interaction/f55f1

IEMPathwayTests.allMetabolitesInteract

Found metabolites without interaction: 4

https://identifiers.org/wikipathways/WP561 has an metabolite not linked to an interaction: Glycine
https://identifiers.org/wikipathways/WP561 has an metabolite not linked to an interaction: CoA
https://identifiers.org/wikipathways/WP561 has an metabolite not linked to an interaction: succinyl-CoA
https://identifiers.org/wikipathways/WP561 has an metabolite not linked to an interaction: Porphobilinogen

MetabolitesTests.tooManyInChIKeys

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

http://classic.wikipathways.org/instance/WP561_r124939 (example) has: protoporphyrin IX 553-12-8 with InChIKeys: ZCFFYALKHPIRKJ-UHFFFAOYSA-N, KSFOVUSSGSKXFI-UJJXFSCMSA-N