Trait: smoking initiation

Experimental Factor Ontology (EFO) Information
Identifier EFO_0005670
Description initation of the habit of smoking, the inhaling and exhaling of tobacco smoke.
Trait category
Biological process

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
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)
PGS003357
(GSCAN_SmkInit_2022_PRS_WEIGHTS_AFR)
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Smoking initiation smoking initiation 1,194,472
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003357/ScoringFiles/PGS003357.txt.gz
PGS003358
(GSCAN_SmkInit_2022_PRS_WEIGHTS_AMR)
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Smoking initiation smoking initiation 1,109,850
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003358/ScoringFiles/PGS003358.txt.gz
PGS003359
(GSCAN_SmkInit_2022_PRS_WEIGHTS_EAS)
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Smoking initiation smoking initiation 859,206
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003359/ScoringFiles/PGS003359.txt.gz
PGS003360
(GSCAN_SmkInit_2022_PRS_WEIGHTS_EUR)
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Smoking initiation smoking initiation 1,055,915
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003360/ScoringFiles/PGS003360.txt.gz
PGS003747
(GRS341_SI)
 PGP000471 |
Tran JH et al. Transl Vis Sci Technol (2023)
 Smoking initiation smoking initiation 341
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003747/ScoringFiles/PGS003747.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
PPM016213 PGS003357
(GSCAN_SmkInit_2022_PRS_WEIGHTS_AFR)
 PSS010064|
African Ancestry|
2,199 individuals
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Reported Trait: Smoking initiation OR: 0.445 (0.112) — ∆ AUC: 0.015
∆ R^2: 0.01		 — —
PPM016214 PGS003358
(GSCAN_SmkInit_2022_PRS_WEIGHTS_AMR)
 PSS010061|
Hispanic or Latin American Ancestry|
1,132 individuals
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Reported Trait: Smoking initiation OR: 0.46 (0.078) — ∆ AUC: 0.027
∆ R^2: 0.036		 — —
PPM016215 PGS003359
(GSCAN_SmkInit_2022_PRS_WEIGHTS_EAS)
 PSS010062|
East Asian Ancestry|
525 individuals
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Reported Trait: Smoking initiation OR: 0.339 (0.096) — ∆ AUC: 0.03
∆ R^2: 0.041		 — —
PPM016216 PGS003360
(GSCAN_SmkInit_2022_PRS_WEIGHTS_EUR)
 PSS010063|
European Ancestry|
6,092 individuals
 PGP000410 |
Saunders GRB et al. Nature (2022)
 Reported Trait: Smoking initiation OR: 0.846 (0.042) — ∆ AUC: 0.118
∆ R^2: 0.096		 — —
PPM018503 PGS003747
(GRS341_SI)
 PSS010997|
Ancestry Not Reported|
14,921 individuals
 PGP000471 |
Tran JH et al. Transl Vis Sci Technol (2023)
 Reported Trait: Any history of smoking OR: 1.2 [1.15, 1.25] — — — —
PPM018504 PGS003747
(GRS341_SI)
 PSS010997|
Ancestry Not Reported|
14,921 individuals
 PGP000471 |
Tran JH et al. Transl Vis Sci Technol (2023)
 Reported Trait: Cigarettes per day OR: 0.45 [0.19, 0.7] — — — —
PPM018506 PGS003747
(GRS341_SI)
 PSS010997|
Ancestry Not Reported|
14,921 individuals
 PGP000471 |
Tran JH et al. Transl Vis Sci Technol (2023)
 Reported Trait: Open-angle glaucoma OR: 0.84 [0.73, 0.98] — — — —
PPM018507 PGS003747
(GRS341_SI)
 PSS010997|
Ancestry Not Reported|
14,921 individuals
 PGP000471 |
Tran JH et al. Transl Vis Sci Technol (2023)
 Reported Trait: Intraocular pressure OR: -0.09 [-0.17, -0.01] — — — —

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
PSS010061 — — 1,132 individuals — Hispanic or Latin American — Add Health —
PSS010062 — — 525 individuals — East Asian — Add Health —
PSS010063 — — 6,092 individuals — European — Add Health —
PSS010064 — — 2,199 individuals — African unspecified — Add Health —
PSS010997 — — 14,921 individuals,
40.9 % Male samples
 Mean = 66.1 years Not reported — RS —