lipidmaps-wp-curation

WikiPathways WP1423

• WikiPathways: WP1423 (classic)
• Species: Homo sapiens
• Scholia: WP1423
• WPRDF file: wp/Human/WP1423.ttl
• GPMLRDF file: wp/gpml/Human/WP1423.ttl
• SBML file: sbml/WP1423.sbml (SVG) (conversion notes)

Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 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: all 8 tests 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: 24
• 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: .. all OK!
  • chebiWithoutMapping_Reactome: .. all OK!
  • chemspiderCIDWithoutMapping: .. all OK!
  • duplicateWikidataMappings: .. all OK!
  • hmdbWithoutMapping: .x we found 1 problem(s):
    • HMDB identifiers without Wikidata mappings: 1
  • 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: 110
• Number of assertions: 222
• Number of fails: 2

Fails

Only LIPID MAPS identifiers

Expected a LIPID MAPS identifier, but found other identifiers: 24

http://classic.wikipathways.org/instance/WP1423_r124472 GT1a has 45259173 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GM1b has 53239726 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GQ1c has 53481235 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GT1c has 53481295 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GT2 has 53481325 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GT3 has 53481355 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GalNAc-GM1b has 73427345 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 O-Acetylated GD3 has 73427362 from PubChem-compound but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 Fuc-GM1 has CHEBI:90189 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 Fuc-GD1b has CHEBI:90265 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 O-Acetylated GT3 has G00170 from KEGG Glycan but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GM3 has HMDB0004844 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GD1a has HMDB0004853 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GM1a has HMDB0004855 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GA2 has HMDB0004898 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GA1 has HMDB0004910 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GD3 has HMDB0004913 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GD2 has HMDB0004925 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GD1b has HMDB0004926 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GT1b has HMDB0004927 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GQ1bA has HMDB0004928 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GM2 has HMDB0004938 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 LacCer has HMDB0006750 from HMDB but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP1423_r124472 GD1A has HMDB0011777 from HMDB but expected a LIPID MAPS identifier

More details at https://www.wikipathways.org/WikiPathwaysCurator/LIPIDMAPSTests/onlyLIPIDMAPS

WikidataTests.hmdbWithoutMapping

HMDB identifiers without Wikidata mappings: 1

https://identifiers.org/hmdb/HMDB0004898 (GA2) does not have a Wikidata mapping in http://classic.wikipathways.org/instance/WP1423_r124472 ;