wikipathways-collection

WikiPathways WP4022

• WikiPathways: WP4022 (classic)
• Species: Homo sapiens
• Scholia: WP4022

  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: 5
  • 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: 13
• GeneralTests: all 15 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .. all OK!
  • UnconnectedPoints: .x we found 1 problem(s):
    • Interactions with unconnected points: 33
  • possibleTranslocations: .. all OK!
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 15 tests OK!
• OudatedDataSourcesTests: all 24 tests OK!
• PathwayTests: all 8 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: 121
• Number of assertions: 243
• Number of fails: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 5

• http://classic.wikipathways.org/instance/WP4022_r137677 http://rdf.wikipathways.org/Pathway/WP4022_r137677/DataNode/c2466 (Alanine, aspartate and glutamate metabolism)
• http://classic.wikipathways.org/instance/WP4022_r137677 http://rdf.wikipathways.org/Pathway/WP4022_r137677/DataNode/ab91f (Arginine and proline metabolism)
• http://classic.wikipathways.org/instance/WP4022_r137677 http://rdf.wikipathways.org/Pathway/WP4022_r137677/DataNode/b38a3 (Pentose phosphate pathway)
• http://classic.wikipathways.org/instance/WP4022_r137677 http://rdf.wikipathways.org/Pathway/WP4022_r137677/DataNode/f1a59 (Valine, leucine and isoleucine metabolism)
• http://classic.wikipathways.org/instance/WP4022_r137677 http://rdf.wikipathways.org/Pathway/WP4022_r137677/DataNode/deb08 (beta-Alanine metabolism)

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: 13

http://classic.wikipathways.org/instance/WP4022_r137677 ENTPD1 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 ENTPD5 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 ENTPD8 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 PNPT1 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 ENTPD3 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 NT5E with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 DPYS with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 ENTPD4 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 CANT1 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 PNP with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 ENTPD6 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 NUDT2 with datasource NCBI Protein
http://classic.wikipathways.org/instance/WP4022_r137677 AK9 with datasource NCBI Protein

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

Interactions with unconnected points

Interactions with unconnected points: 33

• http://classic.wikipathways.org/instance/WP4022_r137677

More details at https://www.wikipathways.org/WikiPathwaysCurator/InteractionTests/UnconnectedPoints