wikipathways-collection

WikiPathways WP4599

• WikiPathways: WP4599 (classic)
• Species: Arabidopsis thaliana

  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: 25
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • 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: 4
• GeneralTests: all 15 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests: all 8 tests 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: 2

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 25

• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/a254a (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/aad69 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/b29a2 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/b3e6f (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/b5267 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/bc2a1 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/c3628 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/c570f (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/c99f3 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/d0aa8 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/e2820 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/e7561 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/e7f2d (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/f2a1a (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/f65d8 (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/ff06b (Catalyst)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/ae0d3 (Metabolite)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/b8fed (Metabolite)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/c2637 (Metabolite)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/c73b9 (Metabolite)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/c8a66 (Metabolite)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/c9436 (Metabolite)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/d33cc (Metabolite)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/d9b4a (Metabolite)
• http://classic.wikipathways.org/instance/WP4599_r118601 http://rdf.wikipathways.org/Pathway/WP4599_r118601/DataNode/dc82a (Metabolite)

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

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: 4

http://classic.wikipathways.org/instance/WP4599_r118601 CYP79D3 with datasource KEGG Genes
http://classic.wikipathways.org/instance/WP4599_r118601 CYP79D4 with datasource KEGG Genes
http://classic.wikipathways.org/instance/WP4599_r118601 CYP79D2 with datasource KEGG Genes
http://classic.wikipathways.org/instance/WP4599_r118601 CYP79D1 with datasource KEGG Genes

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