Polygenic Score (PGS) ID: PGS001088

Predicted Trait
Reported Trait Average weekly alcohol consumption (beer and cider)
Mapped Trait(s) alcohol consumption quality (OBA_1000840)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI1588
Released in PGS Catalog: Oct. 21, 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_INI1588
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 2,842
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%
194,622 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
— 194,622 individuals European UKB — — — white British ancestry —

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
PPM008188 PSS004871|
African Ancestry|
2,231 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ave. weekly beer plus cider intake — — R²: 0.14416 [0.12836, 0.15995]
Incremental R2 (full-covars): -0.00124
PGS R2 (no covariates): 0.00097 [-0.00054, 0.00249]		 age, sex, UKB array type, Genotype PCs —
PPM008189 PSS004872|
East Asian Ancestry|
426 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ave. weekly beer plus cider intake — — R²: 0.12947 [0.09978, 0.15915]
Incremental R2 (full-covars): -0.0302
PGS R2 (no covariates): 2e-05 [-0.0004, 0.00044]		 age, sex, UKB array type, Genotype PCs —
PPM008190 PSS004873|
European Ancestry|
17,009 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ave. weekly beer plus cider intake — — R²: 0.20264 [0.19372, 0.21155]
Incremental R2 (full-covars): 0.0025
PGS R2 (no covariates): 0.01122 [0.00861, 0.01382]		 age, sex, UKB array type, Genotype PCs —
PPM008191 PSS004874|
South Asian Ancestry|
2,187 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ave. weekly beer plus cider intake — — R²: 0.14544 [0.13101, 0.15987]
Incremental R2 (full-covars): 0.00307
PGS R2 (no covariates): 0.00521 [0.00203, 0.00839]		 age, sex, UKB array type, Genotype PCs —
PPM008192 PSS004875|
European Ancestry|
48,642 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ave. weekly beer plus cider intake — — R²: 0.18975 [0.18443, 0.19508]
Incremental R2 (full-covars): 0.00365
PGS R2 (no covariates): 0.00431 [0.00333, 0.0053]		 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
PSS004871 — — 2,231 individuals — African unspecified — UKB —
PSS004872 — — 426 individuals — East Asian — UKB —
PSS004873 — — 17,009 individuals — European non-white British ancestry UKB —
PSS004874 — — 2,187 individuals — South Asian — UKB —
PSS004875 — — 48,642 individuals — European white British ancestry UKB Testing cohort (heldout set)