wikipathways-collection

WikiPathways WP1438

• WikiPathways: WP1438 (classic)
• Species: Homo sapiens
• Scholia: WP1438

  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: 3
  • 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
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .x we found 1 problem(s):
    • Interactions found that involve Labels: 5
  • 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 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: 3

• http://classic.wikipathways.org/instance/WP1438_r108357 http://rdf.wikipathways.org/Pathway/WP1438_r108357/DataNode/bff43 (NP)
• http://classic.wikipathways.org/instance/WP1438_r108357 http://rdf.wikipathways.org/Pathway/WP1438_r108357/DataNode/e15c6 (PB1)
• http://classic.wikipathways.org/instance/WP1438_r108357 http://rdf.wikipathways.org/Pathway/WP1438_r108357/DataNode/f9487 (vRNPs)

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/WP1438_r108357 haemagglutinin with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 nucleocapsid protein with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 NS1 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 matrix protein 1 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 PB1-F2 protein with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 PB2 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 matrix protein 2 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 PA with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 NS2 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 polymerase 1 with datasource Entrez Gene
http://classic.wikipathways.org/instance/WP1438_r108357 neuraminidase with datasource Entrez Gene

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

Interactions with Labels

Interactions found that involve Labels: 5

• http://classic.wikipathways.org/instance/WP1438_r108357 “mRNA export” with graphId c6318
• http://classic.wikipathways.org/instance/WP1438_r108357 “vRNP translocation” with graphId a999f
• http://classic.wikipathways.org/instance/WP1438_r108357 “expression of late viral protein “ with graphId a2803
• http://classic.wikipathways.org/instance/WP1438_r108357 “Pathway: Viral Transcription and Replication” with graphId bc404
• http://classic.wikipathways.org/instance/WP1438_r108357 “Pathway: Virus Assembly and Release” with graphId fa957

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