wikipathways-collection

WikiPathways WP5434

• WikiPathways: WP5434 (classic)
• Species: Homo sapiens
• Scholia: WP5434

  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: 16
  • 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
  • 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: 4

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 6

• http://classic.wikipathways.org/instance/WP5434_r135326 http://rdf.wikipathways.org/Pathway/WP5434_r135326/DataNode/e6a25 (Adherens junction)
• http://classic.wikipathways.org/instance/WP5434_r135326 http://rdf.wikipathways.org/Pathway/WP5434_r135326/DataNode/d4c24 (Calcium signaling pathway)
• http://classic.wikipathways.org/instance/WP5434_r135326 http://rdf.wikipathways.org/Pathway/WP5434_r135326/DataNode/feed7 (HIF-1 signaling pathway)
• http://classic.wikipathways.org/instance/WP5434_r135326 http://rdf.wikipathways.org/Pathway/WP5434_r135326/DataNode/f745a (Jak-STAT signaling pathway)
• http://classic.wikipathways.org/instance/WP5434_r135326 http://rdf.wikipathways.org/Pathway/WP5434_r135326/DataNode/edeec (cAMP signaling pathway)
• http://classic.wikipathways.org/instance/WP5434_r135326 http://rdf.wikipathways.org/Pathway/WP5434_r135326/DataNode/c7405 (p53 signaling pathway)

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

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 16

http://classic.wikipathways.org/instance/WP5434_r135326 "Sustained
angiogenesis" with graphId e0fb5
http://classic.wikipathways.org/instance/WP5434_r135326 "Ligands" with graphId d7ce6
http://classic.wikipathways.org/instance/WP5434_r135326 "Telomeric 
DNA repeats" with graphId a5033
http://classic.wikipathways.org/instance/WP5434_r135326 "Evaiding 
apoptosis" with graphId bccad
http://classic.wikipathways.org/instance/WP5434_r135326 "Block of
differentiation" with graphId cd32c
http://classic.wikipathways.org/instance/WP5434_r135326 "RARa
target genes" with graphId a3712
http://classic.wikipathways.org/instance/WP5434_r135326 "Proliferation" with graphId e085a
http://classic.wikipathways.org/instance/WP5434_r135326 "DNA damage" with graphId f7cde
http://classic.wikipathways.org/instance/WP5434_r135326 "Carcinogens" with graphId a91b5
http://classic.wikipathways.org/instance/WP5434_r135326 "Genomic damage" with graphId f5bfe
http://classic.wikipathways.org/instance/WP5434_r135326 "Genomic instability" with graphId c4abf
http://classic.wikipathways.org/instance/WP5434_r135326 "Resistance to
chemotherapy" with graphId af183
http://classic.wikipathways.org/instance/WP5434_r135326 "Immortality" with graphId f421c
http://classic.wikipathways.org/instance/WP5434_r135326 "Tissue invasion 
and metastasis" with graphId de632
http://classic.wikipathways.org/instance/WP5434_r135326 "Insesitivity to
anti-growth signals" with graphId f8ce5
http://classic.wikipathways.org/instance/WP5434_r135326 "?" with graphId fde17

Possible MIM translocation

Interactions between identical nodes: 1

http://classic.wikipathways.org/instance/WP5434_r135326 http://rdf.wikipathways.org/Pathway/WP5434_r135326/WP/Interaction/id602ce955 "Estradiol" (https://identifiers.org/hmdb/HMDB0000151) and 
Estradiol" (https://identifiers.org/hmdb/HMDB0000151)

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/WP5434_r135326 ‘Cancer pathways’ in Homo sapiens has zero references;

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