wikipathways-collection

WikiPathways WP5142

• WikiPathways: WP5142 (classic)
• Species: Homo sapiens
• Scholia: WP5142

  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
  • entrezGeneIdentifiersNotNumber: .. all OK!
  • affyProbeIdentifiersNotCorrect: .. all OK!
  • outdatedIdentifiers: …. all OK!
  • nonNumericHGNCAccessionNumbers: .. all OK!
  • genesWithoutEnsemblMapping: .x we found 1 problem(s):
    • The following genes with an identifier have been found but that do not have a mapping to Ensembl: 1
• GeneralTests: all 15 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .. all OK!
  • UnconnectedPoints: .. all OK!
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 3
  • 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 10 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• UniProtTests: all 5 tests OK!
• UnicodeTests
  • water: .. all OK!
  • calcium: .x we found 1 problem(s):
    • Metabolite can use Ca²⁺ instead of Ca2+: 1
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 21
• Number of tests: 125
• Number of assertions: 251
• Number of fails: 3

Fails

Genes with identifier but no Ensembl identifier mapping

The following genes with an identifier have been found but that do not have a mapping to Ensembl: 1

http://classic.wikipathways.org/instance/WP5142_r128174 CRAC with datasource Pfam

More details at https://www.wikipathways.org/WikiPathwaysCurator/GeneTests/genesWithoutEnsemblMapping

Possible MIM translocation

Interactions between identical nodes: 3

• http://classic.wikipathways.org/instance/WP5142_r128174 http://rdf.wikipathways.org/Pathway/WP5142_r128174/WP/Interaction/id610eae39 “Ca2+” (https://identifiers.org/chebi/CHEBI:29108) and Ca2+” (https://identifiers.org/chebi/CHEBI:29108)
• http://classic.wikipathways.org/instance/WP5142_r128174 http://rdf.wikipathways.org/Pathway/WP5142_r128174/WP/Interaction/id6be1d52b “Ca2+” (https://identifiers.org/chebi/CHEBI:29108) and Ca2+” (https://identifiers.org/chebi/CHEBI:29108)
• http://classic.wikipathways.org/instance/WP5142_r128174 http://rdf.wikipathways.org/Pathway/WP5142_r128174/WP/Interaction/idd389da36 “Ca2+” (https://identifiers.org/chebi/CHEBI:29108) and Ca2+” (https://identifiers.org/chebi/CHEBI:29108)

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

Calcium chemical formula can use Unicode

Metabolite can use Ca²⁺ instead of Ca2+: 1

• http://classic.wikipathways.org/instance/WP5142_r128174

More details at https://www.wikipathways.org/WikiPathwaysCurator/UnicodeTests/calcium