wikipathways-collection

WikiPathways WP5408

• WikiPathways: WP5408 (classic)
• Species: Homo sapiens
• Scholia: WP5408

  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: all 4 tests OK!
• GeneralTests: all 13 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: 14
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 4
  • 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 8 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: 99
• Number of assertions: 200
• Number of fails: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 3

http://classic.wikipathways.org/instance/WP5408_r129009 http://rdf.wikipathways.org/Pathway/WP5408_r129009/DataNode/ea506 (Actin-related protein 2/3 complex)
http://classic.wikipathways.org/instance/WP5408_r129009 http://rdf.wikipathways.org/Pathway/WP5408_r129009/DataNode/d55c0 (Neuronal AP-3 Adaptor complex)
http://classic.wikipathways.org/instance/WP5408_r129009 http://rdf.wikipathways.org/Pathway/WP5408_r129009/DataNode/eb840 (Signal peptidase complex)

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 14

http://classic.wikipathways.org/instance/WP5408_r129009 "unknown 
function" with graphId de446
http://classic.wikipathways.org/instance/WP5408_r129009 "unknown 
function" with graphId dfc0c
http://classic.wikipathways.org/instance/WP5408_r129009 "regulates keratinocytes 
differentiating in squamous 
epithelia and hair follicles" with graphId d5416
http://classic.wikipathways.org/instance/WP5408_r129009 "fibronectin
exact function unknown" with graphId b07af
http://classic.wikipathways.org/instance/WP5408_r129009 "adds polyadenyl tails
to mRNA 3'-UTR" with graphId c8028
http://classic.wikipathways.org/instance/WP5408_r129009 "protein kinase involved
in cardiac development" with graphId dd2d3
http://classic.wikipathways.org/instance/WP5408_r129009 "unknown 
function" with graphId c33d7
http://classic.wikipathways.org/instance/WP5408_r129009 "Transcriptional regulator
CNS development" with graphId a64ea
http://classic.wikipathways.org/instance/WP5408_r129009 "unknown 
function
golgin" with graphId c7683
http://classic.wikipathways.org/instance/WP5408_r129009 "unknown 
function" with graphId fb5ee
http://classic.wikipathways.org/instance/WP5408_r129009 "unknown 
function" with graphId f623d
http://classic.wikipathways.org/instance/WP5408_r129009 "microtubule mediated
ER to Golgi transport" with graphId f481e
http://classic.wikipathways.org/instance/WP5408_r129009 "cleaves N-terminal signal sequence 
when transporting 
proteins from cytoplasm to ER lumen" with graphId e37bd
http://classic.wikipathways.org/instance/WP5408_r129009 "unknown 
function" with graphId ce5e5

Possible MIM translocation

Interactions between identical nodes: 4

http://classic.wikipathways.org/instance/WP5408_r129009 http://rdf.wikipathways.org/Pathway/WP5408_r129009/WP/Interaction/id100042a2 "Cytidine" (https://identifiers.org/chebi/CHEBI:17562) and 
Cytidine" (https://identifiers.org/chebi/CHEBI:17562)
http://classic.wikipathways.org/instance/WP5408_r129009 http://rdf.wikipathways.org/Pathway/WP5408_r129009/WP/Interaction/id256f15c6 "Uridine" (https://identifiers.org/chebi/CHEBI:16704) and 
Uridine" (https://identifiers.org/chebi/CHEBI:16704)
http://classic.wikipathways.org/instance/WP5408_r129009 http://rdf.wikipathways.org/Pathway/WP5408_r129009/WP/Interaction/idf1bc0476 "Thymidine" (https://identifiers.org/chebi/CHEBI:17748) and 
Thymidine" (https://identifiers.org/chebi/CHEBI:17748)
http://classic.wikipathways.org/instance/WP5408_r129009 http://rdf.wikipathways.org/Pathway/WP5408_r129009/WP/Interaction/idbef66949 "Adenosine" (https://identifiers.org/chebi/CHEBI:16335) and 
Adenosine" (https://identifiers.org/chebi/CHEBI:16335)

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