wikipathways-collection

WikiPathways WP5258

• WikiPathways: WP5258 (classic)
• Species: Homo sapiens
• Scholia: WP5258

  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: 2
  • 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: .x we found 1 problem(s):
    • Unexpected metabolite to non-metabolite conversions:1
  • noNonMetaboliteToMetaboliteConversions: .x we found 1 problem(s):
    • Unexpected non-metabolite to metabolite conversions: 3
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .x we found 1 problem(s):
    • Interactions found that involve Labels: 2
  • 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 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: 5

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 2

http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/DataNode/c09be (IFN signaling)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/DataNode/b397a (RAS signaling)

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

No metabolite to non-metabolite conversions

Unexpected metabolite to non-metabolite conversions:1

• Homo sapiens http://classic.wikipathways.org/instance/WP5258_r129511 → https://identifiers.org/chebi/CHEBI:26523 https://identifiers.org/ensembl/ENSG00000109320 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/iddb0c791d
  

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

InteractionTests.noNonMetaboliteToMetaboliteConversions

Unexpected non-metabolite to metabolite conversions: 3

Homo sapiens http://classic.wikipathways.org/instance/WP5258_r129511 -> https://identifiers.org/ensembl/ENSG00000130234 https://identifiers.org/hmdb/HMDB0001035 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/id48739a9
Homo sapiens http://classic.wikipathways.org/instance/WP5258_r129511 -> https://identifiers.org/hgnc.symbol/NOX1 https://identifiers.org/chebi/CHEBI:26523 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/id9a9ed424
Homo sapiens http://classic.wikipathways.org/instance/WP5258_r129511 -> https://identifiers.org/ensembl/ENSG00000130234 https://identifiers.org/hmdb/HMDB0001035 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/idb14e7f6e

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 2

http://classic.wikipathways.org/instance/WP5258_r129511 "Increased permeability" with graphId b4158
http://classic.wikipathways.org/instance/WP5258_r129511 "Disturbed vascular tone " with graphId afb08

Possible MIM translocation

Interactions between identical nodes: 9

http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/idbed4e731 "ACE2" (https://identifiers.org/ensembl/ENSG00000130234) and 
ACE2" (https://identifiers.org/ensembl/ENSG00000130234)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/idbed4e731 "ACE2" (https://identifiers.org/ensembl/ENSG00000130234) and 
ACE2 (truncated)" (https://identifiers.org/ensembl/ENSG00000130234)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/idbed4e731 "ACE2 (truncated)" (https://identifiers.org/ensembl/ENSG00000130234) and 
ACE2" (https://identifiers.org/ensembl/ENSG00000130234)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/idbed4e731 "ACE2 (truncated)" (https://identifiers.org/ensembl/ENSG00000130234) and 
ACE2 (truncated)" (https://identifiers.org/ensembl/ENSG00000130234)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/id1c7c5bd8 "ACE2" (https://identifiers.org/ensembl/ENSG00000130234) and 
ACE2" (https://identifiers.org/ensembl/ENSG00000130234)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/id1c7c5bd8 "ACE2" (https://identifiers.org/ensembl/ENSG00000130234) and 
ACE2 (truncated)" (https://identifiers.org/ensembl/ENSG00000130234)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/id1c7c5bd8 "ACE2 (truncated)" (https://identifiers.org/ensembl/ENSG00000130234) and 
ACE2" (https://identifiers.org/ensembl/ENSG00000130234)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/id1c7c5bd8 "ACE2 (truncated)" (https://identifiers.org/ensembl/ENSG00000130234) and 
ACE2 (truncated)" (https://identifiers.org/ensembl/ENSG00000130234)
http://classic.wikipathways.org/instance/WP5258_r129511 http://rdf.wikipathways.org/Pathway/WP5258_r129511/WP/Interaction/ide5f8fc10 "ICAM1" (https://identifiers.org/ensembl/ENSG00000090339) and 
ICAM1" (https://identifiers.org/ensembl/ENSG00000090339)

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