wikipathways-collection

WikiPathways WP4300

• WikiPathways: WP4300 (classic)
• Species: Homo sapiens
• Scholia: WP4300

  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: 9
  • 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: 9

• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/beeb3 (C. Fibrosis)
• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/b45e2 (FGF)
• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/f825a (HSP20)
• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/f879c (HSP70)
• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/c5eae (HSP90)
• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/e1c60 (NF-kB Signaling)
• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/c6a68 (PDGF)
• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/f388a (Renin angiotensin system (RAS))
• http://classic.wikipathways.org/instance/WP4300_r129338 http://rdf.wikipathways.org/Pathway/WP4300_r129338/DataNode/ffc01 (p-Akt)

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/WP4300_r129338 mir-29b2 with datasource HGNC Accession number
http://classic.wikipathways.org/instance/WP4300_r129338 mir-29b1 with datasource HGNC Accession number
http://classic.wikipathways.org/instance/WP4300_r129338 mir21-3p with datasource HGNC Accession number

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