Experimental Factor Ontology (EFO) Information | |
Identifier | EFO_0007794 |
Description | quantification of the ratio of 3’-trans-hydroxycotinine to cotinine in a sample, typically in a urine or blood sample | Trait category |
Other measurement
|
Mapped term | PMID:26921259 |
Polygenic Score ID & Name | PGS Publication ID (PGP) | Reported Trait | Mapped Trait(s) (Ontology) | Number of Variants | Ancestry distribution | Scoring File (FTP Link) |
---|---|---|---|---|---|---|
PGS002233 (PRS27_NMR) |
PGP000266 | Chen LS et al. Pharmacogenomics (2018) |
Nicotine metabolite ratio | nicotine metabolite ratio | 27 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002233/ScoringFiles/PGS002233.txt.gz |
PGS002234 (PRS10_NMR) |
PGP000266 | Chen LS et al. Pharmacogenomics (2018) |
Nicotine metabolite ratio | nicotine metabolite ratio | 10 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002234/ScoringFiles/PGS002234.txt.gz |
PGS Performance Metric ID (PPM) |
Evaluated Score |
PGS Sample Set ID (PSS) |
Performance Source | Trait |
PGS Effect Sizes (per SD change) |
Classification Metrics | Other Metrics | Covariates Included in the Model |
PGS Performance: Other Relevant Information |
---|---|---|---|---|---|---|---|---|---|
PPM012703 | PGS002233 (PRS27_NMR) |
PSS009499| European Ancestry| 186 individuals |
PGP000266 | Chen LS et al. Pharmacogenomics (2018) |
Reported Trait: Log nicotine metabolite ratio (ratio of 3-hydroxycotinine:cotinine) | β: 8.04 [3.8, 12.3] | — | R²: 0.15 | — | — |
PPM012704 | PGS002233 (PRS27_NMR) |
PSS009499| European Ancestry| 186 individuals |
PGP000266 | Chen LS et al. Pharmacogenomics (2018) |
Reported Trait: Log experimental nicotine metabolite ratio (D2-3-hydroxycotinine:D2-cotinine 4 hours after ingestion of deuterated nicotine) | β: 10.9 [7.2, 14.5] | — | R²: 0.15 | — | — |
PPM012705 | PGS002233 (PRS27_NMR) |
PSS009499| European Ancestry| 186 individuals |
PGP000266 | Chen LS et al. Pharmacogenomics (2018) |
Reported Trait: Log nicotine metabolism proportion experimental (D2-cotinine/ [D2-nicotine + D2-cotinine] 30 min after ingestion of deuterated nicotine) | β: 2.0 [1.22, 2.78] | — | R²: 0.12 | — | — |
PPM012706 | PGS002234 (PRS10_NMR) |
PSS009499| European Ancestry| 186 individuals |
PGP000266 | Chen LS et al. Pharmacogenomics (2018) |
Reported Trait: Log nicotine metabolite ratio (ratio of 3-hydroxycotinine:cotinine) | β: 2.38 [0.93, 3.83] | — | R²: 0.12 | — | — |
PPM012707 | PGS002234 (PRS10_NMR) |
PSS009499| European Ancestry| 186 individuals |
PGP000266 | Chen LS et al. Pharmacogenomics (2018) |
Reported Trait: Log experimental nicotine metabolite ratio (D2-3-hydroxycotinine:D2-cotinine 4 hours after ingestion of deuterated nicotine) | β: 2.77 [1.53, 4.0] | — | R²: 0.093 | — | — |
PPM012708 | PGS002234 (PRS10_NMR) |
PSS009499| European Ancestry| 186 individuals |
PGP000266 | Chen LS et al. Pharmacogenomics (2018) |
Reported Trait: Log nicotine metabolism proportion experimental (D2-cotinine/ [D2-nicotine + D2-cotinine] 30 min after ingestion of deuterated nicotine) | β: 0.49 [0.22, 0.76] | — | R²: 0.068 | — | — |
PGS Sample Set ID (PSS) |
Phenotype Definitions and Methods | Participant Follow-up Time | Sample Numbers | Age of Study Participants | Sample Ancestry | Additional Ancestry Description | Cohort(s) | Additional Sample/Cohort Information |
---|---|---|---|---|---|---|---|---|
PSS009499 | — | — | 186 individuals, 45.7 % Male samples |
Mean = 35.9 years Sd = 0.37 years |
European | — | COGEND | — |