Polygenic Score (PGS) ID: PGS002125

Predicted Trait
Reported Trait Ever taken cannabis
Mapped Trait(s) Cannabis use (EFO_0007585)
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_ever_cannabis
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 816,604
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
PPM011855 PSS009402|
European Ancestry|
5,865 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ever taken cannabis — — Partial Correlation (partial-r): 0.0878 [0.0623, 0.1131] sex, age, birth date, deprivation index, 16 PCs —
PPM011856 PSS009176|
European Ancestry|
1,104 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ever taken cannabis — — Partial Correlation (partial-r): 0.0861 [0.0267, 0.1449] sex, age, birth date, deprivation index, 16 PCs —
PPM011857 PSS008730|
European Ancestry|
2,006 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ever taken cannabis — — Partial Correlation (partial-r): 0.0935 [0.0497, 0.1369] sex, age, birth date, deprivation index, 16 PCs —
PPM011858 PSS008504|
Greater Middle Eastern Ancestry|
186 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ever taken cannabis — — Partial Correlation (partial-r): 0.0343 [-0.1186, 0.1857] sex, age, birth date, deprivation index, 16 PCs —
PPM011859 PSS008282|
South Asian Ancestry|
784 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ever taken cannabis — — Partial Correlation (partial-r): 0.0754 [0.0045, 0.1455] sex, age, birth date, deprivation index, 16 PCs —
PPM011860 PSS008059|
East Asian Ancestry|
405 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ever taken cannabis — — Partial Correlation (partial-r): -0.0487 [-0.1479, 0.0515] sex, age, birth date, deprivation index, 16 PCs —
PPM011861 PSS007846|
African Ancestry|
333 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ever taken cannabis — — Partial Correlation (partial-r): 0.0181 [-0.0929, 0.1287] sex, age, birth date, deprivation index, 16 PCs —
PPM011862 PSS008950|
African Ancestry|
482 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Ever taken cannabis — — Partial Correlation (partial-r): 0.0517 [-0.0398, 0.1422] 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
PSS007846 — — 333 individuals — African American or Afro-Caribbean Carribean UKB —
PSS008059 — — 405 individuals — East Asian China (East Asia) UKB —
PSS008950 — — 482 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008504 — — 186 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009176 — — 1,104 individuals — European Poland (NE Europe) UKB —
PSS008730 — — 2,006 individuals — European Italy (South Europe) UKB —
PSS008282 — — 784 individuals — South Asian India (South Asia) UKB —
PSS009402 — — 5,865 individuals — European UK (+ Ireland) UKB —