PGS Catalog - PGS001388 / Difficulty not smoking for 1 day (Polygenic Score)

Polygenic Score (PGS) ID: PGS001388

Predicted Trait
Reported Trait	Difficulty not smoking for 1 day
Mapped Trait(s)	smoking behaviour measurement (EFO_0005671)
Additional Trait Information	https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC10003476

Released in PGS Catalog: Nov. 25, 2021

Download Score FTP directory

Terms and Licenses

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_QT_FC10003476
Development Method
Name	snpnet
Parameters	NR
Variants
Original Genome Build	GRCh37
Number of Variants	1
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% 18,890 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
—	18,890 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
PPM007240	PSS007516\| African Ancestry\| 442 individuals	PGP000244 \| Tanigawa Y et al. PLoS Genet (2022)	Reported Trait: Difficulty not smoking for 1 day	—	—	R²: 0.02875 [0.02075, 0.03676] Incremental R2 (full-covars): -0.00116 PGS R2 (no covariates): 0.00583 [0.00214, 0.00952]	age, sex, UKB array type, Genotype PCs	—
PPM007241	PSS007517\| East Asian Ancestry\| 83 individuals	PGP000244 \| Tanigawa Y et al. PLoS Genet (2022)	Reported Trait: Difficulty not smoking for 1 day	—	—	R²: 0.10272 [0.07547, 0.12998] Incremental R2 (full-covars): 0.00128 PGS R2 (no covariates): 0.00197 [-0.00223, 0.00617]	age, sex, UKB array type, Genotype PCs	—
PPM007242	PSS007518\| European Ancestry\| 2,332 individuals	PGP000244 \| Tanigawa Y et al. PLoS Genet (2022)	Reported Trait: Difficulty not smoking for 1 day	—	—	R²: 0.03812 [0.03345, 0.04278] Incremental R2 (full-covars): 0.00242 PGS R2 (no covariates): 0.00399 [0.00242, 0.00555]	age, sex, UKB array type, Genotype PCs	—
PPM007243	PSS007519\| South Asian Ancestry\| 411 individuals	PGP000244 \| Tanigawa Y et al. PLoS Genet (2022)	Reported Trait: Difficulty not smoking for 1 day	—	—	R²: 0.0459 [0.03685, 0.05495] Incremental R2 (full-covars): 0.00319 PGS R2 (no covariates): 0.00748 [0.00368, 0.01128]	age, sex, UKB array type, Genotype PCs	—
PPM007244	PSS007520\| European Ancestry\| 4,595 individuals	PGP000244 \| Tanigawa Y et al. PLoS Genet (2022)	Reported Trait: Difficulty not smoking for 1 day	—	—	R²: 0.02069 [0.01856, 0.02281] Incremental R2 (full-covars): 0.00258 PGS R2 (no covariates): 0.00561 [0.00449, 0.00674]	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
PSS007516	—	—	442 individuals	—	African unspecified	—	UKB	—
PSS007517	—	—	83 individuals	—	East Asian	—	UKB	—
PSS007518	—	—	2,332 individuals	—	European	non-white British ancestry	UKB	—
PSS007519	—	—	411 individuals	—	South Asian	—	UKB	—
PSS007520	—	—	4,595 individuals	—	European	white British ancestry	UKB	Testing cohort (heldout set)