wikipathways-collection

WikiPathways WP4846

• WikiPathways: WP4846 (classic)
• Species: Homo sapiens
• Scholia: WP4846

  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: .. 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: 11
• 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: 4

• http://classic.wikipathways.org/instance/WP4846_r120585 http://rdf.wikipathways.org/Pathway/WP4846_r120585/DataNode/d77e4 (Endocytosis)
• http://classic.wikipathways.org/instance/WP4846_r120585 http://rdf.wikipathways.org/Pathway/WP4846_r120585/DataNode/a7d58 (Membrane fusion)
• http://classic.wikipathways.org/instance/WP4846_r120585 http://rdf.wikipathways.org/Pathway/WP4846_r120585/DataNode/f6e0c (Protein expression)
• http://classic.wikipathways.org/instance/WP4846_r120585 http://rdf.wikipathways.org/Pathway/WP4846_r120585/DataNode/ca04b (Viral RNA synthesis)

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: 11

http://classic.wikipathways.org/instance/WP4846_r120585 ORF3a with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 membrane glycoprotein with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 surface glycoprotein with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 ORF7b with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 orf1 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 ORF7a with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 ORF10 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 ORF6 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 ORF8 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 nucleocapsid phosphoprotein with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP4846_r120585 envelope protein with datasource Entrez Gene

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