Polygenic Score (PGS) ID: PGS001901

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-PLR_drink_alcohol
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 1,065
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
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
391,124 individuals European UK (+ Ireland) UKB

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
PPM010091 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): 0.0209 [0.0068, 0.035] sex, age, birth date, deprivation index, 16 PCs
PPM010092 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): 0.0195 [-0.0118, 0.0508] sex, age, birth date, deprivation index, 16 PCs
PPM010093 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): 0.0217 [-0.0028, 0.0462] sex, age, birth date, deprivation index, 16 PCs
PPM010094 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): 0.0069 [-0.0527, 0.0665] sex, age, birth date, deprivation index, 16 PCs
PPM010095 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): 0.0024 [-0.0233, 0.0281] sex, age, birth date, deprivation index, 16 PCs
PPM010096 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): 0.0204 [-0.0271, 0.0678] sex, age, birth date, deprivation index, 16 PCs
PPM010097 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): 0.0195 [-0.021, 0.06] sex, age, birth date, deprivation index, 16 PCs
PPM010098 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): 0.0279 [-0.0048, 0.0606] 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