wikipathways-collection

WikiPathways WP2841

• WikiPathways: WP2841 (classic)
• Species: Mus musculus

  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: 1
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 1
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all 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: 8
• 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: 15
  • 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 14 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 4 tests OK!

Summary

• Number of test classes: 20
• Number of tests: 118
• Number of assertions: 237
• Number of fails: 4

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 1

• http://classic.wikipathways.org/instance/WP2841_r128757 http://rdf.wikipathways.org/Pathway/WP2841_r128757/DataNode/fb2 (LOC235580)

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

Datanodes of unknown type

The following DataNodes have Unknown @Type: 1

• http://classic.wikipathways.org/instance/WP2841_r128757 http://rdf.wikipathways.org/Pathway/WP2841_r128757/DataNode/aea0f (Hypoxia)

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

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: 8

http://classic.wikipathways.org/instance/WP2841_r128757 Fgf23 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP2841_r128757 Ins2 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP2841_r128757 Gm12597 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP2841_r128757 Kik1b4 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP2841_r128757 Ifna12 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP2841_r128757 Gm15776 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP2841_r128757 Insr with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP2841_r128757 Ins1 with datasource Entrez Gene

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

Interactions with Labels

Interactions found that involve Labels: 15

• http://classic.wikipathways.org/instance/WP2841_r128757 “VEGF signaling Angiogenesis” with graphId dcd
• http://classic.wikipathways.org/instance/WP2841_r128757 “Cell cycle” with graphId e7f49
• http://classic.wikipathways.org/instance/WP2841_r128757 “Cell curvival” with graphId fce69
• http://classic.wikipathways.org/instance/WP2841_r128757 “Fatty acid biosynthesis” with graphId caa7c
• http://classic.wikipathways.org/instance/WP2841_r128757 “Glycolysis/Gluconeogenesis” with graphId b7abd
• http://classic.wikipathways.org/instance/WP2841_r128757 “Glycogen synthesis” with graphId f1245
• http://classic.wikipathways.org/instance/WP2841_r128757 “Cell Growth & protein synethesis” with graphId f8076
• http://classic.wikipathways.org/instance/WP2841_r128757 “Autophagy” with graphId a8fe7
• http://classic.wikipathways.org/instance/WP2841_r128757 “Glycolysis/Gluconeogenesis” with graphId c594e
• http://classic.wikipathways.org/instance/WP2841_r128757 “Energy stress” with graphId db10c
• http://classic.wikipathways.org/instance/WP2841_r128757 “Cholesterol synthesis” with graphId b1ede
• http://classic.wikipathways.org/instance/WP2841_r128757 “Cell proliferation Angiogenesis DNA repair” with graphId d237c
• http://classic.wikipathways.org/instance/WP2841_r128757 “Nuclear to cytoplasm translocation” with graphId db5
• http://classic.wikipathways.org/instance/WP2841_r128757 “Chemokines, Homones, Neurotransmitters” with graphId c3505
• http://classic.wikipathways.org/instance/WP2841_r128757 “Lypolysis” with graphId ce783

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