sr24-curation

WikiPathways WP1982

WikiPathways: WP1982 (classic)
Species: Homo sapiens
Scholia: WP1982
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: 33
- missingHGNC: .. all OK!
DataNodesTests: all 5 tests 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
- allMetabolitesInteract: .x we found 1 problem(s):
  - Found metabolites without interaction: 4
- metabolicConversions: .. all OK!
- catalystsWithCommonDataSource: .. all OK!
- metabolicConversionIdentifiersCommon: .. all OK!
- diseasesHaveIdentifiers: .. all OK!
- omimIdentifiers: .. all 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: 11
- possibleTranslocations: .x we found 1 problem(s):
  - Interactions between identical nodes: 9
- 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: all 15 tests 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: 33

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

All metabolites are involved in interactions

Found metabolites without interaction: 4

https://identifiers.org/wikipathways/WP1982 has an metabolite not linked to an interaction: UFAs
https://identifiers.org/wikipathways/WP1982 has an metabolite not linked to an interaction: PUFAs
https://identifiers.org/wikipathways/WP1982 has an metabolite not linked to an interaction: Glucose
https://identifiers.org/wikipathways/WP1982 has an metabolite not linked to an interaction: Cholesterol

More details at https://www.wikipathways.org/WikiPathwaysCurator/IEMPathwayTests/allMetabolitesInteract

Interactions with Labels

Interactions found that involve Labels: 11

http://classic.wikipathways.org/instance/WP1982_r135870 “Cofactor” with graphId d705d
http://classic.wikipathways.org/instance/WP1982_r135870 “Cholesterol efflux” with graphId f3aa7
http://classic.wikipathways.org/instance/WP1982_r135870 “SRE” with graphId dbd64
http://classic.wikipathways.org/instance/WP1982_r135870 “Cholesterol uptake” with graphId b6757
http://classic.wikipathways.org/instance/WP1982_r135870 “Cofactor” with graphId cfeef
http://classic.wikipathways.org/instance/WP1982_r135870 “Gene” with graphId d9356
http://classic.wikipathways.org/instance/WP1982_r135870 “SRE” with graphId bc181
http://classic.wikipathways.org/instance/WP1982_r135870 “Gene” with graphId ee1fa
http://classic.wikipathways.org/instance/WP1982_r135870 “Fatty acid synthesis” with graphId d7664
http://classic.wikipathways.org/instance/WP1982_r135870 “Cholesterol synthesis” with graphId b0f09
http://classic.wikipathways.org/instance/WP1982_r135870 “Fatty acid degradation” with graphId ec5e9

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

Possible MIM translocation

Interactions between identical nodes: 9

http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “nSREBP” (https://identifiers.org/ensembl/ENSG00000072310) and nSREBP” (https://identifiers.org/ensembl/ENSG00000072310)
http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “nSREBP” (https://identifiers.org/ensembl/ENSG00000072310) and SREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310)
http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “nSREBP” (https://identifiers.org/ensembl/ENSG00000072310) and nSREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310)
http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “SREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310) and nSREBP” (https://identifiers.org/ensembl/ENSG00000072310)
http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “SREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310) and SREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310)
http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “SREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310) and nSREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310)
http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “nSREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310) and nSREBP” (https://identifiers.org/ensembl/ENSG00000072310)
http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “nSREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310) and SREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310)
http://classic.wikipathways.org/instance/WP1982_r135870 http://rdf.wikipathways.org/Pathway/WP1982_r135870/WP/Interaction/id1a728c5d “nSREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310) and nSREBP1a,-c” (https://identifiers.org/ensembl/ENSG00000072310)

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