wikipathways-collection

WikiPathways WP5231

• WikiPathways: WP5231 (classic)
• Species: Homo sapiens
• Scholia: WP5231

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

http://classic.wikipathways.org/instance/WP5231_r134518 TrkB with datasource UniProtKB

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

Interactions with Labels

Interactions found that involve Labels: 6

• http://classic.wikipathways.org/instance/WP5231_r134518 “Adult hippocampal neurogenesis “ with graphId d057e
• http://classic.wikipathways.org/instance/WP5231_r134518 “Cytokines Growth factors “ with graphId fb7fc
• http://classic.wikipathways.org/instance/WP5231_r134518 “Ca2+ dependent synaptic remodeling” with graphId d7d2e
• http://classic.wikipathways.org/instance/WP5231_r134518 “Regulation of calcium homeostasis in neuronal cells. Influences brain development “ with graphId c2c05
• http://classic.wikipathways.org/instance/WP5231_r134518 “Memory cognition(spatial memory, recognition memory, fear memory, pattern discrimination)” with graphId ca2ad
• http://classic.wikipathways.org/instance/WP5231_r134518 “Regulation of multiple postsynaptic and presynaptic proteins through phosphorylation (e.g. neurotransmitter synthesis, cytoskeletal regulation, calcium channel regulation) “ with graphId d4785

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

Possible MIM translocation

Interactions between identical nodes: 1

• http://classic.wikipathways.org/instance/WP5231_r134518 http://rdf.wikipathways.org/Pathway/WP5231_r134518/WP/Interaction/idfd9c3661 “Thyroxine (T4)” (https://identifiers.org/hmdb/HMDB0000248) and Thyroxine (T4)” (https://identifiers.org/hmdb/HMDB0000248)

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