wikipathways-collection

WikiPathways WP2564

• WikiPathways: WP2564 (classic)
• Species: Mycobacterium tuberculosis

  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
  • 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: 21
• 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: 2

• http://classic.wikipathways.org/instance/WP2564_r122569 http://rdf.wikipathways.org/Pathway/WP2564_r122569/DataNode/dec4e (Immune pathology pathway in host)
• http://classic.wikipathways.org/instance/WP2564_r122569 http://rdf.wikipathways.org/Pathway/WP2564_r122569/DataNode/bb835 (Stress response)

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: 21

http://classic.wikipathways.org/instance/WP2564_r122569 SigG with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 lrpI with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigA with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigI with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigK with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 Rv2884 with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigD with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 UsfX with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 RsfB with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigL with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 lrpG with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 RsfA with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigM with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 Rv1823 with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 PhoY1 with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigE with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigB with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigH with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigF with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigJ with datasource UniProtKB
http://classic.wikipathways.org/instance/WP2564_r122569 SigC with datasource UniProtKB

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