wikipathways-collection

WikiPathways WP2197

• WikiPathways: WP2197 (classic)
• Species: Homo sapiens
• Scholia: WP2197

  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: 12
  • 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 15 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .. all OK!
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 5
  • 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
  • nonNumericPubMedIDs: .. all OK!
  • unexpectedPubMedIdentifier: .. all OK!
  • zeroPubMedIDs: .. all OK!
  • atLeastOneReference: .x we found 1 problem(s):
    • Found 1 pathways with zero (PubMed) references
  • citesRetractedArticle: .. all OK!
  • outdatedPubMedIdentifiers: .. all 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: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 12

• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/f2e4b (Big ET1)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/c6ea1 (Ca2+ channel)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/dede3 (Ca2+ channel)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/e7508 (Ca2+ channel)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/c5e16 (EDHF)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/aa3af (Furin-like protease)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/c59a7 (IP3R)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/d3117 (IP3R)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/cfff8 (K+ channel)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/c2438 (PMCA)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/b9f53 (Pre-pro ET1)
• http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/DataNode/fd30a (Pre-pro ET1)

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

Possible MIM translocation

Interactions between identical nodes: 5

http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/WP/Interaction/idc1b3c0dd "NO" (https://identifiers.org/hmdb/HMDB0003378) and 
NO" (https://identifiers.org/hmdb/HMDB0003378)
http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/WP/Interaction/idb3aa2f38 "Endothelin 1" (https://identifiers.org/ensembl/ENSG00000078401) and 
Endothelin 1" (https://identifiers.org/ensembl/ENSG00000078401)
http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/WP/Interaction/id7462d22 "PGI2" (https://identifiers.org/wikidata/Q412050) and 
PGI2" (https://identifiers.org/wikidata/Q412050)
http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/WP/Interaction/idf1eab143 "NO" (https://identifiers.org/hmdb/HMDB0003378) and 
NO" (https://identifiers.org/hmdb/HMDB0003378)
http://classic.wikipathways.org/instance/WP2197_r134211 http://rdf.wikipathways.org/Pathway/WP2197_r134211/WP/Interaction/id5da5c6b1 "NO" (https://identifiers.org/hmdb/HMDB0003378) and 
NO" (https://identifiers.org/hmdb/HMDB0003378)

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

At least one reference

Found 1 pathways with zero (PubMed) references

• http://classic.wikipathways.org/instance/WP2197_r134211 ‘Endothelin pathways’ in Homo sapiens has zero references;

More details at https://www.wikipathways.org/WikiPathwaysCurator/ReferencesTests/atLeastOneReference