wikipathways-collection

WikiPathways WP4329

• WikiPathways: WP4329 (classic)
• Species: Homo sapiens
• Scholia: WP4329

  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: 8
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 1
  • 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: 7
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 3
  • 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: 8

• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/e44b7 (HSP70)
• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/f2671 (HSP70)
• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/afde9 (MIR146A)
• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/bf6fa (MIR146A)
• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/f737a (MIR146A)
• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/f599f (MIR15)
• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/ccffc (sFAS)
• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/f495d (sFASL)

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

Datanodes of unknown type

The following DataNodes have Unknown @Type: 1

• http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/DataNode/df39f (Hypoxia)

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 7

http://classic.wikipathways.org/instance/WP4329_r128743 "Degradation" with graphId a6530
http://classic.wikipathways.org/instance/WP4329_r128743 "MAP3Ks" with graphId a1af3
http://classic.wikipathways.org/instance/WP4329_r128743 "Tissue injury" with graphId f865f
http://classic.wikipathways.org/instance/WP4329_r128743 "Endothelial permeability" with graphId ec459
http://classic.wikipathways.org/instance/WP4329_r128743 "Kaposi sarcoma herpesvirus miR-K12-12" with graphId c88a1
http://classic.wikipathways.org/instance/WP4329_r128743 "Neutrophil 
Infiltration/activation" with graphId af640
http://classic.wikipathways.org/instance/WP4329_r128743 "Multiple organ failure" with graphId c396a

Possible MIM translocation

Interactions between identical nodes: 3

http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/WP/Interaction/ideb635a68 "IL10" (https://identifiers.org/ensembl/ENSG00000136634) and 
IL10" (https://identifiers.org/ensembl/ENSG00000136634)
http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/WP/Interaction/idde594339 "IL6" (https://identifiers.org/ensembl/ENSG00000136244) and 
IL6" (https://identifiers.org/ensembl/ENSG00000136244)
http://classic.wikipathways.org/instance/WP4329_r128743 http://rdf.wikipathways.org/Pathway/WP4329_r128743/WP/Interaction/ide115a15a "TNF" (https://identifiers.org/ensembl/ENSG00000232810) and 
TNF" (https://identifiers.org/ensembl/ENSG00000232810)

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