wikipathways-collection

WikiPathways WP5130

• WikiPathways: WP5130 (classic)
• Species: Homo sapiens
• Scholia: WP5130

  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: 2
• 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: 1
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 9
  • 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

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: 2

http://classic.wikipathways.org/instance/WP5130_r134675 TCRA with datasource HGNC Accession number
http://classic.wikipathways.org/instance/WP5130_r134675 TCRB with datasource HGNC Accession number

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

Interactions with Labels

Interactions found that involve Labels: 1

• http://classic.wikipathways.org/instance/WP5130_r134675 “DNA” with graphId c02d1

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

Possible MIM translocation

Interactions between identical nodes: 9

• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/d07be “IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/d07be “IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and IL1BR” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/d07be “IL1BR” (https://identifiers.org/ensembl/ENSG00000125538) and IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/d07be “IL1BR” (https://identifiers.org/ensembl/ENSG00000125538) and IL1BR” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/c4b06 “IRF4” (https://identifiers.org/ensembl/ENSG00000137265) and IRF4” (https://identifiers.org/ensembl/ENSG00000137265)
• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/dcaa8 “IL21” (https://identifiers.org/ensembl/ENSG00000138684) and IL21” (https://identifiers.org/ensembl/ENSG00000138684)
• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/a32b5 “GATA3” (https://identifiers.org/ensembl/ENSG00000107485) and GATA3” (https://identifiers.org/ensembl/ENSG00000107485)
• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/b1aa3 “HIF1A” (https://identifiers.org/ensembl/ENSG00000100644) and HIF1A” (https://identifiers.org/ensembl/ENSG00000100644)
• http://classic.wikipathways.org/instance/WP5130_r134675 http://rdf.wikipathways.org/Pathway/WP5130_r134675/WP/Interaction/be3f7 “TBX21” (https://identifiers.org/ensembl/ENSG00000073861) and TBX21” (https://identifiers.org/ensembl/ENSG00000073861)

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