sr24-curation

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

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