Polygenic Score (PGS) ID: PGS002115

Predicted Trait
Reported Trait Alcohol drinker status
Mapped Trait(s) alcohol drinking (EFO_0004329)
Additional Trait Information lifestyle and environment
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_drink_alcohol
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 766,714
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000263
Citation (link to publication) Privé F et al. Am J Hum Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 37.5%
African: 25%
East Asian: 12.5%
Greater Middle Eastern: 12.5%
South Asian: 12.5%
8 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
— 391,124 individuals European UKB — — — UK (+ Ireland) —

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
PPM011775 PSS009398|
European Ancestry|
19,294 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alcohol drinker status — — Partial Correlation (partial-r): 0.0284 [0.0143, 0.0425] sex, age, birth date, deprivation index, 16 PCs —
PPM011776 PSS009172|
European Ancestry|
3,938 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alcohol drinker status — — Partial Correlation (partial-r): 0.0691 [0.0379, 0.1002] sex, age, birth date, deprivation index, 16 PCs —
PPM011777 PSS008726|
European Ancestry|
6,413 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alcohol drinker status — — Partial Correlation (partial-r): 0.0566 [0.0321, 0.081] sex, age, birth date, deprivation index, 16 PCs —
PPM011778 PSS008500|
Greater Middle Eastern Ancestry|
1,101 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alcohol drinker status — — Partial Correlation (partial-r): 0.0437 [-0.016, 0.1031] sex, age, birth date, deprivation index, 16 PCs —
PPM011779 PSS008278|
South Asian Ancestry|
5,830 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alcohol drinker status — — Partial Correlation (partial-r): 0.0014 [-0.0243, 0.0271] sex, age, birth date, deprivation index, 16 PCs —
PPM011780 PSS008055|
East Asian Ancestry|
1,726 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alcohol drinker status — — Partial Correlation (partial-r): 0.02 [-0.0275, 0.0674] sex, age, birth date, deprivation index, 16 PCs —
PPM011781 PSS007842|
African Ancestry|
2,357 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alcohol drinker status — — Partial Correlation (partial-r): 0.0094 [-0.0311, 0.0499] sex, age, birth date, deprivation index, 16 PCs —
PPM011782 PSS008946|
African Ancestry|
3,609 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Alcohol drinker status — — Partial Correlation (partial-r): 0.0434 [0.0107, 0.076] sex, age, birth date, deprivation index, 16 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
PSS008946 — — 3,609 individuals — African unspecified Nigeria (West Africa) UKB —
PSS009172 — — 3,938 individuals — European Poland (NE Europe) UKB —
PSS008500 — — 1,101 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009398 — — 19,294 individuals — European UK (+ Ireland) UKB —
PSS008726 — — 6,413 individuals — European Italy (South Europe) UKB —
PSS008278 — — 5,830 individuals — South Asian India (South Asia) UKB —
PSS008055 — — 1,726 individuals — East Asian China (East Asia) UKB —
PSS007842 — — 2,357 individuals — African American or Afro-Caribbean Carribean UKB —