wikipathways-collection

WikiPathways WP5385

• WikiPathways: WP5385 (classic)
• Species: Homo sapiens
• Scholia: WP5385

  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: 4
  • 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: 7
• 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: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 4

• http://classic.wikipathways.org/instance/WP5385_r128454 http://rdf.wikipathways.org/Pathway/WP5385_r128454/DataNode/aba49 (CaM)
• http://classic.wikipathways.org/instance/WP5385_r128454 http://rdf.wikipathways.org/Pathway/WP5385_r128454/DataNode/fd00b (Cyclin A)
• http://classic.wikipathways.org/instance/WP5385_r128454 http://rdf.wikipathways.org/Pathway/WP5385_r128454/DataNode/b1405 (Cyclin D)
• http://classic.wikipathways.org/instance/WP5385_r128454 http://rdf.wikipathways.org/Pathway/WP5385_r128454/DataNode/c85c6 (Pref-1R)

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/WP5385_r128454 http://rdf.wikipathways.org/Pathway/WP5385_r128454/DataNode/da9c9 (Proliferation)

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: 7

http://classic.wikipathways.org/instance/WP5385_r128454 P16ink4a with datasource UniProtKB
http://classic.wikipathways.org/instance/WP5385_r128454 TGFB1 with datasource UniProtKB
http://classic.wikipathways.org/instance/WP5385_r128454 PDGFR-a with datasource UniProtKB
http://classic.wikipathways.org/instance/WP5385_r128454 TRs with datasource InterPro
http://classic.wikipathways.org/instance/WP5385_r128454 EZH2 with datasource UniProtKB
http://classic.wikipathways.org/instance/WP5385_r128454 PI3K with datasource InterPro
http://classic.wikipathways.org/instance/WP5385_r128454 NFAT with datasource InterPro

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