SARS-CoV-2-WikiPathways

WikiPathways WP4876

• WikiPathways: WP4876 (classic)
• Species: Homo sapiens
• Scholia: WP4876
• WPRDF file: wp/Human/WP4876.ttl
• GPMLRDF file: wp/gpml/Human/WP4876.ttl
• SBML file: sbml/WP4876.sbml (SVG) (conversion notes)

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: 12
  • missingHGNC: .. all OK!
• DataNodesTests: all 5 tests OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 13 tests OK!
• HMDBMetabolitesTests: all 1 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .. all OK!
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 12
  • 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 7 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 13 tests OK!

Summary

• Number of test classes: 22
• Number of tests: 111
• Number of assertions: 224
• Number of fails: 2

Fails

Interactions without references

Interactions without literature references: 12

• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/ComplexBinding/f1f54
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id7ef1c6cf
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id38c72c84
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id37038832
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/ide5852d1c
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id56c2671f
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id3a35678b
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/idaa5a11ed
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/ComplexBinding/d72a0
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/idad3dc034
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/ed3f9
• http://classic.wikipathways.org/instance/WP4876_r134900 -> http://rdf.wikipathways.org/Pathway/WP4876_r134900/ComplexBinding/b6589

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

Possible MIM translocation

Interactions between identical nodes: 12

• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id7ef1c6cf “pro-CASP1” (https://identifiers.org/ensembl/ENSG00000137752) and pro-CASP1” (https://identifiers.org/ensembl/ENSG00000137752)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id7ef1c6cf “pro-CASP1” (https://identifiers.org/ensembl/ENSG00000137752) and CASP1” (https://identifiers.org/ensembl/ENSG00000137752)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id7ef1c6cf “CASP1” (https://identifiers.org/ensembl/ENSG00000137752) and pro-CASP1” (https://identifiers.org/ensembl/ENSG00000137752)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/id7ef1c6cf “CASP1” (https://identifiers.org/ensembl/ENSG00000137752) and CASP1” (https://identifiers.org/ensembl/ENSG00000137752)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/idaa5a11ed “IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/idaa5a11ed “IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and pro-IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/idaa5a11ed “pro-IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/idaa5a11ed “pro-IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and pro-IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/ed3f9 “IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/ed3f9 “IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and pro-IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/ed3f9 “pro-IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and IL1B” (https://identifiers.org/ensembl/ENSG00000125538)
• http://classic.wikipathways.org/instance/WP4876_r134900 http://rdf.wikipathways.org/Pathway/WP4876_r134900/WP/Interaction/ed3f9 “pro-IL1B” (https://identifiers.org/ensembl/ENSG00000125538) and pro-IL1B” (https://identifiers.org/ensembl/ENSG00000125538)

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

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