PGS Publication: PGP000266

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.
Released in PGS Catalog: Dec. 10, 2021

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

PGS Developed By This Publication

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

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
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] : 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] : 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] : 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] : 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] : 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] : 0.068

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
PSS009499 186 individuals,
45.7 % Male samples
Mean = 35.9 years
Sd = 0.37 years
European COGEND