Polygenic Score (PGS) ID: PGS002909

Predicted Trait
Reported Trait Drinking status
Mapped Trait(s) alcohol drinking (EFO_0004329)
Additional Trait Information Alcohol drinker status: Current; Binary
Released in PGS Catalog: Nov. 23, 2022
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Score Details

Score Construction
PGS Name ExPRSweb_Drinking_20117-2_LASSOSUM_MGI_20211120
Development Method
Name lassosum
Parameters Lassosum 0.4.4 (MAF >= 1%; autosomal variants only)s=0.9;Lambda=0.001
Variants
Original Genome Build GRCh37
Number of Variants 396,976
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000393
Citation (link to publication) Ma Y et al. Am J Hum Genet (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
360,726 individuals (100%)
Score Development/Training
European: 100%
22,427 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
360,726 individuals European UKB
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
—
[
  • 15,557 cases
  • , 6,870 controls
]
 European MGI never/past/current alcohol use was recoded to never/ever responses.; Binary — — — —

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
PPM015788 PSS010002|
European Ancestry|
22,425 individuals
 PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
 Reported Trait: Drinking Status OR: 1.151 [1.118, 1.184]
β: 0.14 (0.0146)		 AUROC: 0.539 [0.531, 0.548] — SEX,AGE,Batch,PC1,PC2,PC3,PC4 —

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
PSS010002 never/past/current alcohol use was recoded to never/ever responses.; Binary —
[
  • 15,343 cases
  • , 7,082 controls
]
 — European — MGI —