wikipathways-collection

WikiPathways WP5346

• WikiPathways: WP5346 (classic)
• Species: Homo sapiens
• Scholia: WP5346

  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!
  • numericHGNCIDs: .. 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: 23
  • UnconnectedPoints: .. all OK!
  • 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 11 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• Sec2PriProjectTests
  • outdatedHGNCSymbol: .. all OK!
  • outdatedHGNCAccessionNumber: .. all OK!
  • outdatedNCBIIdentifiers: .. all OK!
  • outdatedChEBIIdentifiers: .x we found 1 problem(s):
    • Old ChEBI identifiers detected: 1
  • outdatedHMDBIdentifiers: .. all OK!
  • outdatedUniProtKBIdentifiers2: .. all OK!
• UniProtTests: all 5 tests OK!
• UnicodeTests: all 16 tests OK!
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 22
• Number of tests: 147
• Number of assertions: 293
• 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/WP5346_r140364 AP-1 with datasource InterPro

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

Interactions with Labels

Interactions found that involve Labels: 23

• http://classic.wikipathways.org/instance/WP5346_r140364 “Cardiac specific gene expression” with graphId bd448
• http://classic.wikipathways.org/instance/WP5346_r140364 “Unknown function” with graphId c8390
• http://classic.wikipathways.org/instance/WP5346_r140364 “Unknown function” with graphId cd311
• http://classic.wikipathways.org/instance/WP5346_r140364 “Unknown function” with graphId bf0ef
• http://classic.wikipathways.org/instance/WP5346_r140364 “Unknown function” with graphId e373a
• http://classic.wikipathways.org/instance/WP5346_r140364 “Telomere shortening” with graphId d9da2
• http://classic.wikipathways.org/instance/WP5346_r140364 “Autophagy” with graphId c9970
• http://classic.wikipathways.org/instance/WP5346_r140364 “Insulin secretion” with graphId afbe3
• http://classic.wikipathways.org/instance/WP5346_r140364 “Tight junction “ with graphId e4568
• http://classic.wikipathways.org/instance/WP5346_r140364 “Spindle pole assembly” with graphId acf15
• http://classic.wikipathways.org/instance/WP5346_r140364 “Antibacterial activity” with graphId d30ac
• http://classic.wikipathways.org/instance/WP5346_r140364 “Unknown function” with graphId bbb8b
• http://classic.wikipathways.org/instance/WP5346_r140364 “Telomeres” with graphId a01dd
• http://classic.wikipathways.org/instance/WP5346_r140364 “Unknown function” with graphId b6bb6
• http://classic.wikipathways.org/instance/WP5346_r140364 “Sugar and nucleotide transporter” with graphId fe9ee
• http://classic.wikipathways.org/instance/WP5346_r140364 “Unknown function” with graphId ac6a0
• http://classic.wikipathways.org/instance/WP5346_r140364 “Vesicle traficking” with graphId b55e5
• http://classic.wikipathways.org/instance/WP5346_r140364 “Involved in histone regulation” with graphId d7e0b
• http://classic.wikipathways.org/instance/WP5346_r140364 “Cardiac-super-enhancers Cardiac development” with graphId bb26b
• http://classic.wikipathways.org/instance/WP5346_r140364 “Probably involved in glycogen breakdown” with graphId f76b1
• http://classic.wikipathways.org/instance/WP5346_r140364 “Prometaphase” with graphId aa8ca
• http://classic.wikipathways.org/instance/WP5346_r140364 “M1 macrophage polarization” with graphId aed95
• http://classic.wikipathways.org/instance/WP5346_r140364 “Differentiation of photo-receptor cells” with graphId d2acc

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

ChEBI identifier has been retracted

Old ChEBI identifiers detected: 1

• http://classic.wikipathways.org/instance/WP5346_r140364 O-phospho-L-tyrosyl-[protein] has ChEBI ID CHEBI:82620 but has been replaced by CHEBI:61978

More details at https://www.wikipathways.org/WikiPathwaysCurator/Sec2PriProjectTests/outdatedChEBIIdentifiers