wikipathways-collection

WikiPathways WP5345

• WikiPathways: WP5345 (classic)
• Species: Homo sapiens
• Scholia: WP5345

  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: .. 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: 31
  • 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: 4

• http://classic.wikipathways.org/instance/WP5345_r134459 http://rdf.wikipathways.org/Pathway/WP5345_r134459/DataNode/cc71d (BTB)
• http://classic.wikipathways.org/instance/WP5345_r134459 http://rdf.wikipathways.org/Pathway/WP5345_r134459/DataNode/bc77e (Beta 1-3-linked galactose)
• http://classic.wikipathways.org/instance/WP5345_r134459 http://rdf.wikipathways.org/Pathway/WP5345_r134459/DataNode/a4429 (E3 ubiquitin-protein ligase complex)
• http://classic.wikipathways.org/instance/WP5345_r134459 http://rdf.wikipathways.org/Pathway/WP5345_r134459/DataNode/c5a30 (Neuron Morphogenesis)

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 31

http://classic.wikipathways.org/instance/WP5345_r134459 "encodes a component of 
the extracellular matrix " with graphId e5bd1
http://classic.wikipathways.org/instance/WP5345_r134459 "Formation NMJ" with graphId f617a
http://classic.wikipathways.org/instance/WP5345_r134459 "Regulates calcium-dependant activities 
in the ER lumen or post-ER compartment" with graphId eaadc
http://classic.wikipathways.org/instance/WP5345_r134459 "DNA-templated transcription" with graphId c7de8
http://classic.wikipathways.org/instance/WP5345_r134459 "Transcription by RNA polymerase II" with graphId baff6
http://classic.wikipathways.org/instance/WP5345_r134459 "zinc ion binding
mitochondrial organization
nucleotide/ATP binding
ATP hydrolysis activity " with graphId fc44f
http://classic.wikipathways.org/instance/WP5345_r134459 "Activation of
innate immunity" with graphId d9e52
http://classic.wikipathways.org/instance/WP5345_r134459 "Enables calcium ion binding activity, 
Enzyme regulator activity.
Regulation of catalytic activity" with graphId bbc4b
http://classic.wikipathways.org/instance/WP5345_r134459 "Th2 differentiation" with graphId ec915
http://classic.wikipathways.org/instance/WP5345_r134459 "pre-RNA splicing" with graphId e0407
http://classic.wikipathways.org/instance/WP5345_r134459 "ECM organization
collagen catabolic process
pepitdase/hydrolase activtiy
zinc and metal ion binding" with graphId d08c4
http://classic.wikipathways.org/instance/WP5345_r134459 "Long-term T-cell
imunitry" with graphId ab697
http://classic.wikipathways.org/instance/WP5345_r134459 "unknown function" with graphId c49f2
http://classic.wikipathways.org/instance/WP5345_r134459 "Unknown
" with graphId d7d05
http://classic.wikipathways.org/instance/WP5345_r134459 "Tonic inhibition" with graphId abb62
http://classic.wikipathways.org/instance/WP5345_r134459 "Anexome assembly" with graphId c71c6
http://classic.wikipathways.org/instance/WP5345_r134459 "Transcriptional 
repressor" with graphId f3822
http://classic.wikipathways.org/instance/WP5345_r134459 "Membrane component" with graphId f4ee4
http://classic.wikipathways.org/instance/WP5345_r134459 "unknown function" with graphId a4ff0
http://classic.wikipathways.org/instance/WP5345_r134459 "cytokinesis
apoptosis
" with graphId a2285
http://classic.wikipathways.org/instance/WP5345_r134459 "p53/TP53 apoptosis" with graphId d0841
http://classic.wikipathways.org/instance/WP5345_r134459 "Increased energy
metabolism" with graphId b2025
http://classic.wikipathways.org/instance/WP5345_r134459 "actin binding
zinc and metal ion binding
transferase activity" with graphId f1f19
http://classic.wikipathways.org/instance/WP5345_r134459 "PRC1 component together with SAMD7" with graphId ede7d
http://classic.wikipathways.org/instance/WP5345_r134459 "ribosomal large subunit assembly 
" with graphId d3e76
http://classic.wikipathways.org/instance/WP5345_r134459 "Retention of ER proteins" with graphId e8d16
http://classic.wikipathways.org/instance/WP5345_r134459 "HDAC p53/TP53" with graphId e9d5d
http://classic.wikipathways.org/instance/WP5345_r134459 "Unknown function" with graphId d4207
http://classic.wikipathways.org/instance/WP5345_r134459 "Decrease stability
of the leptin mRNA" with graphId ec247
http://classic.wikipathways.org/instance/WP5345_r134459 "Gamma-secretase complex 
assembly" with graphId ee6e4
http://classic.wikipathways.org/instance/WP5345_r134459 "Interaction between
activated T-lymphocytes
& endothelial cells 
& T-cell receptor 
mediated apoptosis" with graphId fb561

Possible MIM translocation

Interactions between identical nodes: 1

http://classic.wikipathways.org/instance/WP5345_r134459 http://rdf.wikipathways.org/Pathway/WP5345_r134459/WP/Interaction/ed25c "C1P" (https://identifiers.org/chebi/CHEBI:72963) and 
C1P" (https://identifiers.org/chebi/CHEBI:72963)

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