wikipathways-collection

WikiPathways WP5482

• WikiPathways: WP5482 (classic)
• Species: Homo sapiens
• Scholia: WP5482

  Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .x we found 1 problem(s):
    • The following DataNodes have no identifier: 17
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 21
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests: all 8 tests OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 tests OK!
• OudatedDataSourcesTests: all 24 tests OK!
• PathwayTests: all 7 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests
  • nonNumericPubMedIDs: .. all OK!
  • unexpectedPubMedIdentifier: .. all OK!
  • zeroPubMedIDs: .. all OK!
  • atLeastOneReference: .x we found 1 problem(s):
    • Found 1 pathways with zero (PubMed) references
  • citesRetractedArticle: .. all OK!
  • outdatedPubMedIdentifiers: .. all OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 20
• Number of tests: 117
• Number of assertions: 235
• Number of fails: 3

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 17

• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/c38f0 (AO2: COPD)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/d54fd (AO3: Acute respiratory distress syndrome)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/f18d4 (AO4: Asthma)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/da5b1 (Carbon monoxide)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b34b6 (Cigarette smoke)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/a2b1a (Emission from biomass fuel and combusiton)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b4879 (Industrial smoke)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/d473a (KE3: Cell death and cycle arrest)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/fb04e (KE5: Collagen production and reduced ECM)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/f50c3 (KE6: ER stress)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/e7f2c (MIE1: ROS production upregulation)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b3397 (Nitrogen oxides)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/dbfc9 (Ozone)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/d1708 (Particulate matter)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/c9468 (Pesticides)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/e5966 (Pollen grains)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b180f (Sulphur oxides)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/dataNodesWithoutIdentifier

Datanodes of unknown type

The following DataNodes have Unknown @Type: 21

• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/df2b2 (AO1: Idophatic pulmonary fibrosis)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/c38f0 (AO2: COPD)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/d54fd (AO3: Acute respiratory distress syndrome)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/f18d4 (AO4: Asthma)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/da5b1 (Carbon monoxide)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b34b6 (Cigarette smoke)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/a2b1a (Emission from biomass fuel and combusiton)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b4879 (Industrial smoke)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/dcfb6 (KE1: Increased oxidative stress)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/d14ec (KE2: Inflammation and pro-fibrotic state )
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/d473a (KE3: Cell death and cycle arrest)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b6897 (KE4: Mitrochondrial dysfucntion)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/fb04e (KE5: Collagen production and reduced ECM)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/f50c3 (KE6: ER stress)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/e7f2c (MIE1: ROS production upregulation)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b3397 (Nitrogen oxides)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/dbfc9 (Ozone)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/d1708 (Particulate matter)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/c9468 (Pesticides)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/e5966 (Pollen grains)
• http://classic.wikipathways.org/instance/WP5482_r135313 http://rdf.wikipathways.org/Pathway/WP5482_r135313/DataNode/b180f (Sulphur oxides)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/unknownTypes

At least one reference

Found 1 pathways with zero (PubMed) references

• http://classic.wikipathways.org/instance/WP5482_r135313 ‘Oxidative stress in pulmonary tissue’ in Homo sapiens has zero references;

More details at https://www.wikipathways.org/WikiPathwaysCurator/ReferencesTests/atLeastOneReference