wikipathways-collection

WikiPathways WP135

• WikiPathways: WP135 (classic)
• Species: Rattus norvegicus

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests: all 5 tests 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: 10
• 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
  • nonNumericPubMedIDs: .. all OK!
  • unexpectedPubMedIdentifier: .. all OK!
  • zeroPubMedIDs: .. all OK!
  • atLeastOneReference: .x we found 1 problem(s):
    • Found 1 pathways with zero (PubMed) references
  • citesRetractedArticle: .. all OK!
  • outdatedPubMedIdentifiers: .. all 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

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: 10

http://classic.wikipathways.org/instance/WP135_r125589 PPP2R5C with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Vav1 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Stat1 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Erbb3 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Ppp2r1b with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Map2k2 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Inpp5d with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Ppp2r5e with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Hspca with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP135_r125589 Ep300 with datasource Entrez Gene

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

At least one reference

Found 1 pathways with zero (PubMed) references

• http://classic.wikipathways.org/instance/WP135_r125589 ‘IL-6 signaling pathway’ in Rattus norvegicus has zero references;

More details at https://www.wikipathways.org/WikiPathwaysCurator/ReferencesTests/atLeastOneReference