sr24-curation

WikiPathways WP4290

• WikiPathways: WP4290 (classic)
• Species: Homo sapiens
• Scholia: WP4290

  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: 69
  • 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: 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: 1
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 2
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests
  • metaboliteAlsoOtherType: .. all OK!
  • casNumbersNotMarkedAsMetabolite: .. all OK!
  • chemspiderIDsNotMarkedAsMetabolite: .. all OK!
  • HMDBIDsNotMarkedAsMetabolite: .. all OK!
  • KEGGIDsNotMarkedAsMetabolite: .. all OK!
  • metabolitesWithAnEnsembleID: .. all OK!
  • metabolitesWithAnEntrezGeneID: .. all OK!
  • metabolitesWithDbButNoIdentifier: .. all OK!
  • metabolitesWithIdentifierButNoDb: .. all OK!
  • ChEBIIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemSubstanceIDsNotMarkedAsMetabolite: .. all OK!
  • PubChemIDsNotNumbers: .. all OK!
  • PubChemSubstanceIDsNotNumbers: .. all OK!
  • tooManyInChIKeys: .x we found 1 problem(s):
    • Non-zero count of metabolites with more than one InChIKey: 4
• 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

CovidDiseaseMapsTests.interactionsWithoutReferences

Interactions without literature references: 69

http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idb213e098
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/a1be5
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/ida23e2577
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id64a5ad62
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id3741b32a
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/c27cf_2
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id46480d5d
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id5b35b607
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id848eb35
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/a1b2e
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/e7453
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/da767
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idd1dc58a3
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id4b897550
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id298fdba
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id850b408f
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id8b1dc082
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/ec8eb
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id89f523ac
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idedcb12b8
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id5cef3ad2
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/a4b8e
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/ea3aa
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id6c9eb540
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/f7726_2
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idc5af421c
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/d8b05
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id6693a213
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idab9c107
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id94f81660
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id35c246c6
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/f514d_2
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/b489b
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id9c3079a8
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/iddc786064
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id1e821c4b
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idd3a00f33
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id53691a47
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/e735c
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id6ff5a5f8
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/cf66e
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idbe32559c
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idd4026148
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id98487b94
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/e964f
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/de029
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/d62a0
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/iddf00f9c4
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/f7726_1
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id5c76343c
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/f03fb
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/a3a20
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/f344e
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idaa3765c5
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id8050d34f
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id10285ceb
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/d63cc
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id2a1cc8b5
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idef9fda19
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id82ad4764
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id52cea2d3
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/f3673
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idafe33e6
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id31578d96
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id1235d5f9
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id4397b644
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id574f3953
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id3f69820b
http://classic.wikipathways.org/instance/WP4290_r136156 -> http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id73252605

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 1

http://classic.wikipathways.org/instance/WP4290_r136156 "pH balance
Nitrogen source" with graphId f0da4

Possible MIM translocation

Interactions between identical nodes: 2

http://classic.wikipathways.org/instance/WP4290_r136156 http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/id35c246c6 "glutamine" (https://identifiers.org/chebi/CHEBI:28300) and 
glutamine" (https://identifiers.org/chebi/CHEBI:28300)
http://classic.wikipathways.org/instance/WP4290_r136156 http://rdf.wikipathways.org/Pathway/WP4290_r136156/WP/Interaction/idd3a00f33 "Lactate" (https://identifiers.org/hmdb/HMDB0000190) and 
Lactate" (https://identifiers.org/hmdb/HMDB0000190)

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

MetabolitesTests.tooManyInChIKeys

Non-zero count of metabolites with more than one InChIKey: 4

http://classic.wikipathways.org/instance/WP4290_r136156 (example) has: NH3 CHEBI:16134 with InChIKeys: QGZKDVFQNNGYKY-UHFFFAOYSA-N, RUVUHIUYGJBLGI-AXAJWWPKSA-N
http://classic.wikipathways.org/instance/WP4290_r136156 (example) has: Asparagine CHEBI:17196 with InChIKeys: DCXYFEDJOCDNAF-REOHCLBHSA-N, UYPYRKYUKCHHIB-UHFFFAOYSA-N
http://classic.wikipathways.org/instance/WP4290_r136156 (example) has: IMP CHEBI:17202 with InChIKeys: GRSZFWQUAKGDAV-UHFFFAOYSA-N, GRSZFWQUAKGDAV-KQYNXXCUSA-N
http://classic.wikipathways.org/instance/WP4290_r136156 (example) has: glutamine CHEBI:28300 with InChIKeys: ZDXPYRJPNDTMRX-UHFFFAOYSA-N, RSOHUXCZIQMEMQ-JLHYYAGUSA-N