wikipathways-collection

WikiPathways WP3584

• WikiPathways: WP3584 (classic)
• Species: Homo sapiens
• Scholia: WP3584

  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: 6
  • 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: .x we found 1 problem(s):
    • Interactions found that involve Labels: 9
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 1
  • 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: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 6

• http://classic.wikipathways.org/instance/WP3584_r128284 http://rdf.wikipathways.org/Pathway/WP3584_r128284/DataNode/d4dc9 (Ak081227)
• http://classic.wikipathways.org/instance/WP3584_r128284 http://rdf.wikipathways.org/Pathway/WP3584_r128284/DataNode/cb49e (Ak087060)
• http://classic.wikipathways.org/instance/WP3584_r128284 http://rdf.wikipathways.org/Pathway/WP3584_r128284/DataNode/cc402 (H3)
• http://classic.wikipathways.org/instance/WP3584_r128284 http://rdf.wikipathways.org/Pathway/WP3584_r128284/DataNode/b0118 (HB1)
• http://classic.wikipathways.org/instance/WP3584_r128284 http://rdf.wikipathways.org/Pathway/WP3584_r128284/DataNode/b9462 (HP1)
• http://classic.wikipathways.org/instance/WP3584_r128284 http://rdf.wikipathways.org/Pathway/WP3584_r128284/DataNode/fbf10 (PI3K)

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 9

http://classic.wikipathways.org/instance/WP3584_r128284 "Activation of transcription
(stop of inhibition, res. from
phosphorylated MECP2)" with graphId c3ce4
http://classic.wikipathways.org/instance/WP3584_r128284 "Cell proliferation" with graphId fe0e1
http://classic.wikipathways.org/instance/WP3584_r128284 "Neuronal activity
leads to increase of Ca2+  " with graphId a339f
http://classic.wikipathways.org/instance/WP3584_r128284 "P" with graphId e1a3c
http://classic.wikipathways.org/instance/WP3584_r128284 "macropinocytosis " with graphId ed348
http://classic.wikipathways.org/instance/WP3584_r128284 "P" with graphId e5190
http://classic.wikipathways.org/instance/WP3584_r128284 "Histone deacetylation" with graphId e51ba
http://classic.wikipathways.org/instance/WP3584_r128284 "P" with graphId da976
http://classic.wikipathways.org/instance/WP3584_r128284 "DNA binding" with graphId de831

Possible MIM translocation

Interactions between identical nodes: 1

http://classic.wikipathways.org/instance/WP3584_r128284 http://rdf.wikipathways.org/Pathway/WP3584_r128284/WP/Interaction/idf2a25a0b "RPS6" (https://identifiers.org/ensembl/ENSG00000137154) and 
RPS6" (https://identifiers.org/ensembl/ENSG00000137154)

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