lipidmaps-wp-curation

WikiPathways WP4523

• WikiPathways: WP4523
• Scholia: WP4523
• WPRDF file: wp/Human/WP4523.ttl
• GPMLRDF file: wp/gpml/Human/WP4523.ttl
• SBML file: sbml/WP4523.sbml (SVG) (conversion notes)

Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 4 tests OK!
• ChemSpiderTests: all 2 tests 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: .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
  • retiredIdentifiers: .. all OK!
  • onlyLIPIDMAPS: .x we found 1 problem(s):
    • Expected a LIPID MAPS identifier, but found other identifiers: 30
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 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
  • casWithoutMapping: .. all OK!
  • chebiWithoutMapping: .x we found 1 problem(s):
    • ChEBI identifiers without Wikidata mappings: 1
  • chebiWithoutMapping_Reactome: .. all OK!
  • chemspiderCIDWithoutMapping: .. all OK!
  • duplicateWikidataMappings: .. all OK!
  • hmdbWithoutMapping: .. all OK!
  • kNApSAcKWithoutMapping: .. all OK!
  • keggWithoutMapping: .. all OK!
  • lipidMapsWithoutMapping: .. all OK!
  • pubchemCIDWithoutMapping: .. all OK!
  • replaceWikipedia: .. all OK!
  • retiredIdentifiers: .. all OK!
  • wikDataTypo: .. all OK!
  • wikidataIdentifiersWrong: .. all OK!

Summary

• Number of test classes: 21
• Number of tests: 109
• Number of assertions: 220
• Number of fails: 3

Fails

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 2

http://classic.wikipathways.org/instance/WP4523_r125468 "Progesterone resistance" with graphId d96a9
http://classic.wikipathways.org/instance/WP4523_r125468 "Oestrogen resistance" with graphId f667a

LIPIDMAPSTests.onlyLIPIDMAPS

Expected a LIPID MAPS identifier, but found other identifiers: 30

http://classic.wikipathways.org/instance/WP4523_r125468 11b,17a 21-Trihydroxy-5b Pregnane 3,20-dione has 1482-50-4 from CAS but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 3a-OH-5b-Pregnane-20-one has 24779614 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 11b, 21-Dihydroxy-3,20- 5b-Pregnan-18-al has 44263338 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 3a,11b,21-Trihydroxy-20- Oxo-5b-Pregnan-18-al has 44263346 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Cortolone has 516-42-7 from CAS but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Urocortisone has 5754 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Urocortisol has 5864 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 17a,21-Dihydroxy-5b-17a,21-Dihydroxy -5b-Pregnane-3,11,20-trione has 65554 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Pregnanediol has 80-92-2 from CAS but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 5b-Pregnane-3,20-dione has 92745 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Cholesterol has CHEBI:16113 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Dihydrotestosterone has CHEBI:16330 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Androstenedione has CHEBI:16422 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Oestradiol has CHEBI:16469 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 18-hydroxycorticosterone has CHEBI:16485 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Pregnenolone has CHEBI:16581 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Corticosterone has CHEBI:16827 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Cortisone has CHEBI:16962 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 (11)-Deoxycorticosterone has CHEBI:16973 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Progesterone has CHEBI:17026 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 17-hydroxyprogesterone has CHEBI:17252 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Testosterone has CHEBI:17347 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Glucuronides has CHEBI:26763 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Aldosterone has CHEBI:27584 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 11-Deoxycortisol has CHEBI:28324 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 DHEA has CHEBI:28689 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 17-hydroxypregnenolone has CHEBI:28750 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 NADPH has CHEBI:57783 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 NADP+ has CHEBI:58349 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4523_r125468 Cortisol has Q190875 from Wikidata but expected a LIPID MAPS identifier

More details at https://wikipathways.github.io/WikiPathwaysCurator/LIPIDMAPSTests/onlyLIPIDMAPS

WikidataTests.chebiWithoutMapping

ChEBI identifiers without Wikidata mappings: 1

https://identifiers.org/chebi/CHEBI:26763 (Glucuronides) does not have a Wikidata mapping in http://classic.wikipathways.org/instance/WP4523_r125468 ;