wikipathways-collection
WikiPathways WP5563
- WikiPathways: WP5563 (classic)
- Species: Homo sapiens
- Scholia: WP5563
Tests
- CASMetabolitesTests: all 2 tests OK!
- ChEBIMetabolitesTests: all 5 tests OK!
- ChemSpiderTests: all 2 tests OK!
- DataNodesTests
- dataNodesWithoutIdentifier: .x we found 1 problem(s):
- unknownTypes_knownDatasource: .x we found 1 problem(s):
- unknownTypes: .x we found 1 problem(s):
- unknownTypes_Reactome: .. all OK!
- otherDataSource: .. all OK!
- EnsemblTests: all 4 tests OK!
- GeneTests: all 5 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: .. all OK!
- UnconnectedPoints: .x we found 1 problem(s):
- possibleTranslocations: .x we found 1 problem(s):
- 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
- deletedPathways: .. all OK!
- linksToDeletedPathways: .. all OK!
- linksToDeletedPathways_All: .. all OK!
- speciesMismatch: .. all OK!
- testRoundedRectangle: .x we found 1 problem(s):
- youMustCite: .. all OK!
- oldLicenses: .. all OK!
- mediawikiLinks: .. all OK!
- ProteinsTests: all 2 tests OK!
- PubChemMetabolitesTests: all 3 tests OK!
- ReferencesTests: all 6 tests OK!
- UniProtTests: all 5 tests OK!
- UnicodeTests: all 1 tests OK!
- WikidataTests: all 4 tests OK!
Summary
- Number of test classes: 21
- Number of tests: 122
- Number of assertions: 245
- Number of fails: 6
Fails
Data nodes without an identifier
The following DataNodes have no identifier: 12
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/a472f (C-terminus RNA polymerase II)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/dad9d (C-terminus RNA polymerase II)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/c5c71 (Mediator 26-subunit)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/c65f7 (Mediator 26-subunit)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/f4086 (Promoter escape)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/c9d7c (Promoter opening)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/a8178 (RNA Polymerase II)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/e0b98 (TAF 13-subunit)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/efddc (TAF 13-subunit)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/b8646 (Transcription elongation)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/e0226 (Transcription factors (TF))
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/e0b2c (mRNA)
More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/dataNodesWithoutIdentifier
Data nodes with type ‘Unknown’
The following DataNodes have Unknown @Type: 1
http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/d0d5e (Ensembl)
More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/unknownTypes_knownDatasource
Datanodes of unknown type
The following DataNodes have Unknown @Type: 6
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/c5c71 (Mediator 26-subunit)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/c65f7 (Mediator 26-subunit)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/e0b98 (TAF 13-subunit)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/efddc (TAF 13-subunit)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/d0d5e (TFIID)
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/DataNode/e0226 (Transcription factors (TF))
More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/unknownTypes
Interactions with unconnected points
Interactions with unconnected points: 1
More details at https://www.wikipathways.org/WikiPathwaysCurator/InteractionTests/UnconnectedPoints
Possible MIM translocation
Interactions between identical nodes: 1
- http://classic.wikipathways.org/instance/WP5563_r139351 http://rdf.wikipathways.org/Pathway/WP5563_r139351/WP/Interaction/idd7c3eedb “TBP” (https://identifiers.org/ensembl/ENSG00000112592) and TBP” (https://identifiers.org/ensembl/ENSG00000112592)
More details at https://www.wikipathways.org/WikiPathwaysCurator/InteractionTests/possibleTranslocations
PathwayTests.testRoundedRectangle
Pathways DataNodes with WikiPathways ID that can be converted to have a RoundedRectangle ShapeType so that they become clickable: 1
http://classic.wikipathways.org/instance/WP5563_r139351 -> ea922, WP405