wikipathways-collection

WikiPathways WP2571

• WikiPathways: WP2571 (classic)
• Species: Homo sapiens
• Scholia: WP2571

  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: 4
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 3
  • 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: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .x we found 1 problem(s):
    • Interactions found that involve Labels: 9
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 7
  • 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: 4

http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/DataNode/bebac (Na+/K+-ATPase)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/DataNode/db92e (Na+/K+-ATPase)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/DataNode/cb707 (Protein synthesis)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/DataNode/c8940 (SOC)

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

DataNodesTests.unknownTypes

The following DataNodes have Unknown @Type: 3

http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/DataNode/bebac (Na+/K+-ATPase)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/DataNode/db92e (Na+/K+-ATPase)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/DataNode/ef4b7 (V2R)

No metabolite to non-metabolite conversions

Unexpected metabolite to non-metabolite conversions:1

• Homo sapiens http://classic.wikipathways.org/instance/WP2571_r128611 → https://identifiers.org/hmdb/HMDB0013072 https://identifiers.org/hgnc.symbol/SSTR2 http://rdf.wikipathways.org/Pathway/WP2571_r128611/WP/Interaction/idd742e884
  

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 9

http://classic.wikipathways.org/instance/WP2571_r128611 "Src inhibitors" with graphId b4b7f
http://classic.wikipathways.org/instance/WP2571_r128611 "KCa3.1 
inhibitors" with graphId a4be2
http://classic.wikipathways.org/instance/WP2571_r128611 "MEK inhibitors" with graphId e21d2
http://classic.wikipathways.org/instance/WP2571_r128611 "CFTR 
inhibitors" with graphId bdae1
http://classic.wikipathways.org/instance/WP2571_r128611 "mTOR inhibitors" with graphId fa98e
http://classic.wikipathways.org/instance/WP2571_r128611 "TKIs" with graphId f42a4
http://classic.wikipathways.org/instance/WP2571_r128611 "TNF 
antagonist" with graphId b6ea7
http://classic.wikipathways.org/instance/WP2571_r128611 "CDK inhibitors" with graphId ab2e2
http://classic.wikipathways.org/instance/WP2571_r128611 "Proteasome" with graphId a88a5

Possible MIM translocation

Interactions between identical nodes: 7

http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/WP/Interaction/id5f88598d "K+" (https://identifiers.org/chebi/CHEBI:29103) and 
K+" (https://identifiers.org/chebi/CHEBI:29103)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/WP/Interaction/id7c4bbde6 "Cl-" (https://identifiers.org/chebi/CHEBI:17996) and 
Cl-" (https://identifiers.org/chebi/CHEBI:17996)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/WP/Interaction/ida96588c8 "Ca2+" (https://identifiers.org/chebi/CHEBI:29108) and 
Ca2+" (https://identifiers.org/chebi/CHEBI:29108)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/WP/Interaction/id8c9cef96 "Ca2+" (https://identifiers.org/chebi/CHEBI:29108) and 
Ca2+" (https://identifiers.org/chebi/CHEBI:29108)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/WP/Interaction/idb687c214 "Ca2+" (https://identifiers.org/chebi/CHEBI:29108) and 
Ca2+" (https://identifiers.org/chebi/CHEBI:29108)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/WP/Interaction/id7fcc89a9 "Ca2+" (https://identifiers.org/chebi/CHEBI:29108) and 
Ca2+" (https://identifiers.org/chebi/CHEBI:29108)
http://classic.wikipathways.org/instance/WP2571_r128611 http://rdf.wikipathways.org/Pathway/WP2571_r128611/WP/Interaction/idfa8d6531 "Ca2+" (https://identifiers.org/chebi/CHEBI:29108) and 
Ca2+" (https://identifiers.org/chebi/CHEBI:29108)

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