wikipathways-collection

WikiPathways WP4321

• WikiPathways: WP4321 (classic)
• Species: Homo sapiens
• Scholia: WP4321

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .x we found 1 problem(s):
    • The following DataNodes have no identifier: 2
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBSecMetabolitesTests: all 3 tests 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: 6
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 8
  • 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 24 tests OK!
• PathwayTests: all 7 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests
  • nonNumericPubMedIDs: .. all OK!
  • unexpectedPubMedIdentifier: .. all OK!
  • zeroPubMedIDs: .. all OK!
  • atLeastOneReference: .x we found 1 problem(s):
    • Found 1 pathways with zero (PubMed) references
  • citesRetractedArticle: .. all OK!
  • outdatedPubMedIdentifiers: .. all OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 20
• Number of tests: 117
• Number of assertions: 235
• Number of fails: 4

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 2

• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/DataNode/b04eb (Regulation of lipolysis in adipocyte)
• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/DataNode/de6e5 (cAMP signaling pathway)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/dataNodesWithoutIdentifier

Interactions with Labels

Interactions found that involve Labels: 6

• http://classic.wikipathways.org/instance/WP4321_r134818 “Sympathetic nervous system” with graphId e58ce
• http://classic.wikipathways.org/instance/WP4321_r134818 “Heat” with graphId da801
• http://classic.wikipathways.org/instance/WP4321_r134818 “Hypothalamus” with graphId c6e10
• http://classic.wikipathways.org/instance/WP4321_r134818 “ATPase” with graphId dde94
• http://classic.wikipathways.org/instance/WP4321_r134818 “Cold overfeeding” with graphId a4ba4
• http://classic.wikipathways.org/instance/WP4321_r134818 “Complexes I II III IV” with graphId cdb65

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

Possible MIM translocation

Interactions between identical nodes: 8

• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/WP/Interaction/idf871240e “H+” (https://identifiers.org/chebi/CHEBI:15378) and H+” (https://identifiers.org/chebi/CHEBI:15378)
• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/WP/Interaction/idff31b704 “Acylcarnitine” (https://identifiers.org/chebi/CHEBI:75659) and Acylcarnitine” (https://identifiers.org/chebi/CHEBI:75659)
• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/WP/Interaction/id46a8e9e5 “H+” (https://identifiers.org/chebi/CHEBI:15378) and H+” (https://identifiers.org/chebi/CHEBI:15378)
• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/WP/Interaction/id574106d “H+” (https://identifiers.org/chebi/CHEBI:15378) and H+” (https://identifiers.org/chebi/CHEBI:15378)
• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/WP/Interaction/id57294529 “Carnitine” (https://identifiers.org/chebi/CHEBI:3424) and Carnitine” (https://identifiers.org/chebi/CHEBI:3424)
• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/WP/Interaction/id193a33aa “FGF21” (https://identifiers.org/ensembl/ENSG00000105550) and FGF21” (https://identifiers.org/ensembl/ENSG00000105550)
• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/WP/Interaction/iddb8c0b62 “UCP1” (https://identifiers.org/ensembl/ENSG00000109424) and UCP1” (https://identifiers.org/ensembl/ENSG00000109424)
• http://classic.wikipathways.org/instance/WP4321_r134818 http://rdf.wikipathways.org/Pathway/WP4321_r134818/WP/Interaction/id655271cc “H+” (https://identifiers.org/chebi/CHEBI:15378) and H+” (https://identifiers.org/chebi/CHEBI:15378)

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

At least one reference

Found 1 pathways with zero (PubMed) references

• http://classic.wikipathways.org/instance/WP4321_r134818 ‘Thermogenesis’ in Homo sapiens has zero references;

More details at https://www.wikipathways.org/WikiPathwaysCurator/ReferencesTests/atLeastOneReference