wikipathways-collection

WikiPathways WP5221

• WikiPathways: WP5221 (classic)
• Species: Homo sapiens
• Scholia: WP5221

  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: 5
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 8
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• 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: 5
  • 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: 117
• Number of assertions: 235
• Number of fails: 4

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 5

• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/b20fc (CIA Complex)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/f6b67 (E3 ubiquitin-protein ligase)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/bc0ee (Incorporation of iron-sulfur cluster in proteins)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/fc624 (Metal transporter)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/aadd2 (myogenic differentiation)

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

Datanodes of unknown type

The following DataNodes have Unknown @Type: 8

• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/f6b67 (E3 ubiquitin-protein ligase)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/bc0ee (Incorporation of iron-sulfur cluster in proteins)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/fc624 (Metal transporter)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/cdf75 (Polyspermy)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/e7b27 (chondrocyte differentiation)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/b0ad1 (chromosome condensation)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/d2560 (fertilization)
• http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/DataNode/aadd2 (myogenic differentiation)

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 5

http://classic.wikipathways.org/instance/WP5221_r134556 "Exact function unknown" with graphId c06fc
http://classic.wikipathways.org/instance/WP5221_r134556 "Exact function unknown" with graphId f3f12
http://classic.wikipathways.org/instance/WP5221_r134556 "Exact function unknown" with graphId b828f
http://classic.wikipathways.org/instance/WP5221_r134556 "AT-rich stretches DNA" with graphId a0a80
http://classic.wikipathways.org/instance/WP5221_r134556 "Regulates
gene expressison" with graphId b6d86

Possible MIM translocation

Interactions between identical nodes: 1

http://classic.wikipathways.org/instance/WP5221_r134556 http://rdf.wikipathways.org/Pathway/WP5221_r134556/WP/Interaction/id73f1ddb3 "glycoproteins" (https://identifiers.org/chebi/CHEBI:17089) and 
glycoproteins" (https://identifiers.org/chebi/CHEBI:17089)

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