PGS Publication: PGP000641

Publication Information (EuropePMC)
Title Evaluation of a weighted genetic risk score for the prediction of biomarkers of CYP2A6 activity.
PubMed ID 30815984(Europe PMC)
doi 10.1111/adb.12741
Publication Date Feb. 27, 2019
Journal Addict Biol
Author(s) El-Boraie A, Taghavi T, Chenoweth MJ, Fukunaga K, Mushiroda T, Kubo M, Lerman C, Nollen NL, Benowitz NL, Tyndale RF.
Released in PGS Catalog: May 22, 2024

Associated Polygenic Score(s)

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Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
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PGS Developed By This Publication

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)
PGS004909
(EUR_wGRS7)
 PGP000641 |
El-Boraie A et al. Addict Biol (2019)
 Nicotine metabolite ratio nicotine metabolite ratio 8
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004909/ScoringFiles/PGS004909.txt.gz

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

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
PPM021363 PGS004909
(EUR_wGRS7)
 PSS011703|
European Ancestry|
196 individuals
 PGP000641 |
El-Boraie A et al. Addict Biol (2019)
 Reported Trait: Nicotine metabolite ratio in treatment-seeking smokers — — R²: 0.411 Sex, age, body mass index —
PPM021364 PGS004909
(EUR_wGRS7)
 PSS011703|
European Ancestry|
196 individuals
 PGP000641 |
El-Boraie A et al. Addict Biol (2019)
 Reported Trait: Nicotine metabolism (slow vs normal) in treatment seeking smokers — AUROC: 0.78 [0.71, 0.85] — — Slow metabolisers with a nicotine metabolite ratio (NMR) <0.31 vs normal metabolisers with a NMR ≥0.31.
PPM021365 PGS004909
(EUR_wGRS7)
 PSS011703|
European Ancestry|
196 individuals
 PGP000641 |
El-Boraie A et al. Addict Biol (2019)
 Reported Trait: Nicotine metabolism (slow vs normal) in treatment seeking smokers — AUROC: 0.78 [0.71, 0.86] — — Slow metabolisers with a nicotine metabolite ratio (NMR) <0.26 vs normal metabolisers with a NMR ≥0.26.

Evaluated Samples

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
PSS011703 Participants were treatment seeking smokers. Using a nicotine metabolite ratio (NMR) cut-point of 0.31, individuals with slow nicotine metabolism were defined as having a NMR <0.31 whilst individuals with normal rates of nicotine metabolism were defined as having a NMR ≥0.31. Using a nicotine metabolite ratio (NMR) cut-point of 0.26, individuals with slow nicotine metabolism were defined as having a NMR <0.26 whilst individuals with normal rates of nicotine metabolism were defined as having a NMR ≥0.26. — 196 individuals — European — Q2L —