wikipathways-collection

WikiPathways WP4598

• WikiPathways: WP4598 (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: 11
  • 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: 3
• 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: 11

• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/a8407 (Catalyst)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/c0575 (Catalyst)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/d6e8c (Catalyst)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/ddb7f (Catalyst)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/e500f (Catalyst)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/eb9b4 (Catalyst)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/eccd1 (Catalyst)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/a8942 (Metabolite)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/b2203 (Metabolite)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/ef46f (Metabolite)
• http://classic.wikipathways.org/instance/WP4598_r105283 http://rdf.wikipathways.org/Pathway/WP4598_r105283/DataNode/f39b4 (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: 3

http://classic.wikipathways.org/instance/WP4598_r105283 CYP79A1 with datasource KEGG Genes
http://classic.wikipathways.org/instance/WP4598_r105283 O-methyltransferase with datasource TAIR
http://classic.wikipathways.org/instance/WP4598_r105283 indole glucosinolate methyltransferase with datasource TAIR

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