WP4705.md

# WikiPathways WP4705

• WikiPathways: WP4705 (classic)
• Species: Homo sapiens
• Scholia: WP4705

Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• CovidDiseaseMapsTests
  • interactionsWithoutReferences: .x we found 1 problem(s):
    • Interactions without literature references: 36
  • missingHGNC: .. all OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .x we found 1 problem(s):
    • The following DataNodes have no identifier: 2
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 5 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBMetabolitesTests: all 2 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• IEMPathwayTests: all 6 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: 2
  • possibleTranslocations: .. all OK!
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 15 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
  • keggWithoutMapping: .. all OK!
  • pubchemCIDWithoutMapping: .. all OK!
  • hmdbWithoutMapping: .. all OK!
  • casWithoutMapping: .. all OK!
  • wikDataTypo: .. all OK!
  • duplicateWikidataMappings: .. all OK!
  • wikidataIdentifiersWrong: .. all OK!
  • chemspiderCIDWithoutMapping: .. all OK!
  • lipidMapsWithoutMapping: .. all OK!
  • kNApSAcKWithoutMapping: .. all OK!
  • replaceWikipedia: .. all OK!
  • chebiWithoutMapping_Reactome: .. all OK!
  • chebiWithoutMapping: .x we found 1 problem(s):
    • ChEBI identifiers without Wikidata mappings: 2
  • inchikeyWithoutMapping: .. all OK!
  • retiredIdentifiers: .. all OK!

Summary

• Number of test classes: 23
• Number of tests: 140
• Number of assertions: 281
• Number of fails: 4

Fails

Interactions without references

Interactions without literature references: 36

• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/ed0de
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/f413f
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id71c25215
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idf290c8fa
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id31c220f4
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idab62fb7b
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/ComplexBinding/d60b6
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idfd223107
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/ide910b442
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id61811f11
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idd45ff29e
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/ida930645
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id4a94bff
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/b7745
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/fdacc
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idc52f8c77
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idca056563
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id658e2ed4
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idc12ee2d5
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id28463d3b
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idbbf5b0dd
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/ida8bbcb3c
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id7e04d7bc
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id3d85da4c
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/a4121
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/df6a1
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id997e3eb9
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/ideda7de2a
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idd096d760
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idc9dfed8a
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/id3b4d59a9
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/d980b
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idddca2baf
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/ba725
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idbd3bcc46
• http://classic.wikipathways.org/instance/WP4705_r136158 -> http://rdf.wikipathways.org/Pathway/WP4705_r136158/WP/Interaction/idaffa35d6

More details at https://www.wikipathways.org/WikiPathwaysCurator/CovidDiseaseMapsTests/interactionsWithoutReferences

Data nodes without an identifier

The following DataNodes have no identifier: 2

• http://classic.wikipathways.org/instance/WP4705_r136158 http://rdf.wikipathways.org/Pathway/WP4705_r136158/DataNode/a294a (DNA sensing pathway led by cGAS)
• http://classic.wikipathways.org/instance/WP4705_r136158 http://rdf.wikipathways.org/Pathway/WP4705_r136158/DataNode/e9f7c (RNA sensing pathways led by MDA5 and RIG-I)

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

Interactions with Labels

Interactions found that involve Labels: 2

• http://classic.wikipathways.org/instance/WP4705_r136158 "UV light" with graphId cd31a
• http://classic.wikipathways.org/instance/WP4705_r136158 "RNA degradation" with graphId ede18

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

ChEBI identifier without a match in Wikidata

ChEBI identifiers without Wikidata mappings: 2

• https://identifiers.org/chebi/CHEBI:74411 (Adenosine) does not have a Wikidata mapping in http://classic.wikipathways.org/instance/WP4705_r136158
• https://identifiers.org/chebi/CHEBI:82852 (Inosine) does not have a Wikidata mapping in http://classic.wikipathways.org/instance/WP4705_r136158

More details at https://www.wikipathways.org/WikiPathwaysCurator/WikidataTests/chebiWithoutMapping