wikipathways-collection

WikiPathways WP2263

• WikiPathways: WP2263 (classic)
• Species: Homo sapiens
• Scholia: WP2263

  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: 10
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 1
  • 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: 1
• 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: 6
  • 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: 4

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 10

• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/ca45a (ASK1)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/b0b3f (BACH1)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/c8153 (OCT1)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/cb169 (PUMA)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/c7f71 (Translation)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/fec1f (p13K)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/a04be (p14)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/eb86b (p15)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/eb573 (p21)
• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/fec09 (p27)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/dataNodesWithoutIdentifier

Datanodes of unknown type

The following DataNodes have Unknown @Type: 1

• http://classic.wikipathways.org/instance/WP2263_r134233 http://rdf.wikipathways.org/Pathway/WP2263_r134233/DataNode/c7f71 (Translation)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/unknownTypes

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: 1

http://classic.wikipathways.org/instance/WP2263_r134233 TMPRSS2 with datasource HGNC Accession number

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

Interactions with Labels

Interactions found that involve Labels: 6

• http://classic.wikipathways.org/instance/WP2263_r134233 “Anoikis” with graphId b5f77
• http://classic.wikipathways.org/instance/WP2263_r134233 “CDC42 pathway” with graphId dbb55
• http://classic.wikipathways.org/instance/WP2263_r134233 “Transcription” with graphId e72d6
• http://classic.wikipathways.org/instance/WP2263_r134233 “Transcription of COX2” with graphId fd156
• http://classic.wikipathways.org/instance/WP2263_r134233 “RAC1 pathway” with graphId a6f48
• http://classic.wikipathways.org/instance/WP2263_r134233 “Trancription” with graphId b3a68

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