sr24-curation

WikiPathways WP5173

• WikiPathways: WP5173 (classic)
• Species: Homo sapiens
• Scholia: WP5173

  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: 3
  • metabolicConversions: .. all OK!
  • catalystsWithCommonDataSource: .. all OK!
  • metabolicConversionIdentifiersCommon: .x we found 1 problem(s):
    • Unexpected data source for the metabolic conversion: 1
  • diseasesHaveIdentifiers: .. all OK!
  • omimIdentifiers: .. all OK!
• InteractionTests
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .x we found 1 problem(s):
    • Interactions found that involve Labels: 13
  • possibleTranslocations: .. all OK!
  • 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: 4

Fails

Interactions without references

Interactions without literature references: 8

• http://classic.wikipathways.org/instance/WP5173_r136172 -> http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/f16aa
• http://classic.wikipathways.org/instance/WP5173_r136172 -> http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/ac8fc
• http://classic.wikipathways.org/instance/WP5173_r136172 -> http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/fe651
• http://classic.wikipathways.org/instance/WP5173_r136172 -> http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/a84b2_2
• http://classic.wikipathways.org/instance/WP5173_r136172 -> http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/f0f1e
• http://classic.wikipathways.org/instance/WP5173_r136172 -> http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/e0131
• http://classic.wikipathways.org/instance/WP5173_r136172 -> http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/a84b2_1
• http://classic.wikipathways.org/instance/WP5173_r136172 -> http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/e5a6a

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

All metabolites are involved in interactions

Found metabolites without interaction: 3

• https://identifiers.org/wikipathways/WP5173 has an metabolite not linked to an interaction: Glucose-6-phosphate
• https://identifiers.org/wikipathways/WP5173 has an metabolite not linked to an interaction: UDP-galactose
• https://identifiers.org/wikipathways/WP5173 has an metabolite not linked to an interaction: Glycogen

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

Common metabolite-metabolite conversion identifier

Unexpected data source for the metabolic conversion: 1

• https://identifiers.org/wikipathways/WP5173 http://rdf.wikipathways.org/Pathway/WP5173_r136172/WP/Interaction/e0131 Wikidata Q22281942

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

Interactions with Labels

Interactions found that involve Labels: 13

• http://classic.wikipathways.org/instance/WP5173_r136172 “Fanconi-Bickel syndrome” with graphId fd3d0
• http://classic.wikipathways.org/instance/WP5173_r136172 “Uridine diphosphate galactose-4-epimerase deficiency” with graphId c9ff6
• http://classic.wikipathways.org/instance/WP5173_r136172 “Congenital disorder of glycosylation, type It” with graphId de139
• http://classic.wikipathways.org/instance/WP5173_r136172 “Glycogen storage disease IV” with graphId aaa50
• http://classic.wikipathways.org/instance/WP5173_r136172 “Glycogen storage disease 0, muscle” with graphId fbaa3
• http://classic.wikipathways.org/instance/WP5173_r136172 “Glycogen storage disease XV” with graphId abc2c
• http://classic.wikipathways.org/instance/WP5173_r136172 “Galactosaemia” with graphId a8706
• http://classic.wikipathways.org/instance/WP5173_r136172 “Intestinal glucose-galactose malabsorption” with graphId d61c1
• http://classic.wikipathways.org/instance/WP5173_r136172 “Polyglucosan body myopathy 2” with graphId b5440
• http://classic.wikipathways.org/instance/WP5173_r136172 “Glycogen storage disease VI” with graphId ae5e6
• http://classic.wikipathways.org/instance/WP5173_r136172 “Galactokinase deficiency” with graphId d2625
• http://classic.wikipathways.org/instance/WP5173_r136172 “Glycogen storage disease 0, liver” with graphId f124e
• http://classic.wikipathways.org/instance/WP5173_r136172 “Polyglucosan body neuropathy” with graphId eba21

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