| Publication Information (EuropePMC) | |
| Title | Use of polygenic risk scores of nicotine metabolism in predicting smoking behaviors. |
| PubMed ID | 30442082(Europe PMC) |
| doi | 10.2217/pgs-2018-0081 |
| Publication Date | Nov. 16, 2018 |
| Journal | Pharmacogenomics |
| Author(s) | Chen LS, Hartz SM, Baker TB, Ma Y, L Saccone N, Bierut LJ. |
| Polygenic Score ID & Name | PGS Publication ID (PGP) | Reported Trait | Mapped Trait(s) (Ontology) | Number of Variants |
Ancestry distribution GWAS Dev Eval |
Scoring File (FTP Link) |
|---|---|---|---|---|---|---|
| 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 |
| 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 |
|
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 | — |