Polygenic Score (PGS) ID: PGS001515

Predicted Trait
Reported Trait Number of cigarettes currently smoked daily (current cigarette smokers)
Mapped Trait(s) cigarettes per day measurement (EFO_0006525)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI3456
Released in PGS Catalog: Nov. 25, 2021
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PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name GBE_INI3456
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 9
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
18,793 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 Sample Sets

Development Samples

Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
— 18,793 individuals European UKB — — — white British ancestry Training + validation cohort (train_val)

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) 		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
PPM007085 PSS007246|
African Ancestry|
438 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.01822 [0.01178, 0.02466]
Incremental R2 (full-covars): -0.00395
PGS R2 (no covariates): 0.00404 [0.00097, 0.00712]		 age, sex, UKB array type, Genotype PCs —
PPM007086 PSS007247|
East Asian Ancestry|
86 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.1229 [0.09376, 0.15204]
Incremental R2 (full-covars): 0.00955
PGS R2 (no covariates): 0.02937 [0.01361, 0.04513]		 age, sex, UKB array type, Genotype PCs —
PPM007087 PSS007248|
European Ancestry|
2,329 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.09619 [0.08923, 0.10315]
Incremental R2 (full-covars): 0.00371
PGS R2 (no covariates): 0.00361 [0.00212, 0.0051]		 age, sex, UKB array type, Genotype PCs —
PPM007088 PSS007249|
South Asian Ancestry|
411 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.04868 [0.03939, 0.05797]
Incremental R2 (full-covars): 0.01303
PGS R2 (no covariates): 0.01795 [0.01212, 0.02377]		 age, sex, UKB array type, Genotype PCs —
PPM007089 PSS007250|
European Ancestry|
4,562 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) — — R²: 0.07868 [0.07478, 0.08258]
Incremental R2 (full-covars): 0.00371
PGS R2 (no covariates): 0.00532 [0.00423, 0.00642]		 age, sex, UKB array type, Genotype PCs —

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
PSS007246 — — 438 individuals — African unspecified — UKB —
PSS007247 — — 86 individuals — East Asian — UKB —
PSS007248 — — 2,329 individuals — European non-white British ancestry UKB —
PSS007249 — — 411 individuals — South Asian — UKB —
PSS007250 — — 4,562 individuals — European white British ancestry UKB Testing cohort (heldout set)