wikipathways-collection

WikiPathways WP3193

• WikiPathways: WP3193 (classic)
• Species: Bos taurus

  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: 20
  • 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:4
  • noNonMetaboliteToMetaboliteConversions: .x we found 1 problem(s):
    • Unexpected non-metabolite to metabolite conversions: 1
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .. 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 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: 20

http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/abd0a (CBR)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/a4679 (D-dimer)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/df2e5 (D-dimer)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/ee3b8 (DNA Oxidation)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/eef73 (Fibrin)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/f990a (Fibrin)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/adc7f (Fibrinogen)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/e9439 (Fibrinogen)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/a633f (HbA1c)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/f9add (HbA1c)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/b8188 (INS)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/bc163 (INS)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/e017d (Lipid peroxidation)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/dc73d (Lipoprotein metabolism)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/aa1ae (MM-CoA-H)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/d1a9a (Prostaglandin metabolism)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/b6cf6 (Protein tyrosine nitration)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/d4c73 (SAA1)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/f26d7 (SAA2)
http://classic.wikipathways.org/instance/WP3193_r120912 http://rdf.wikipathways.org/Pathway/WP3193_r120912/DataNode/c3164 (SAA3)

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

No metabolite to non-metabolite conversions

Unexpected metabolite to non-metabolite conversions:4

• Bos taurus http://classic.wikipathways.org/instance/WP3193_r120912 → https://identifiers.org/hmdb/HMDB0001491 https://identifiers.org/ensembl/ENSBTAG00000013907 http://rdf.wikipathways.org/Pathway/WP3193_r120912/WP/Interaction/c8326
  
• Bos taurus http://classic.wikipathways.org/instance/WP3193_r120912 → https://identifiers.org/hmdb/HMDB0002174 https://identifiers.org/ensembl/ENSBTAG00000025471 http://rdf.wikipathways.org/Pathway/WP3193_r120912/WP/Interaction/id933b9fdc
  
• Bos taurus http://classic.wikipathways.org/instance/WP3193_r120912 → https://identifiers.org/hmdb/HMDB0002174 https://identifiers.org/ensembl/ENSBTAG00000014921 http://rdf.wikipathways.org/Pathway/WP3193_r120912/WP/Interaction/idccfc7228
  
• Bos taurus http://classic.wikipathways.org/instance/WP3193_r120912 → https://identifiers.org/hmdb/HMDB0002174 https://identifiers.org/ensembl/ENSBTAG00000013907 http://rdf.wikipathways.org/Pathway/WP3193_r120912/WP/Interaction/ide54eefdb
  

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

InteractionTests.noNonMetaboliteToMetaboliteConversions

Unexpected non-metabolite to metabolite conversions: 1

Bos taurus http://classic.wikipathways.org/instance/WP3193_r120912 -> https://identifiers.org/ensembl/ENSBTAG00000010123 https://identifiers.org/chebi/CHEBI:17855 http://rdf.wikipathways.org/Pathway/WP3193_r120912/WP/Interaction/idd7fac72d