Polygenic Score (PGS) ID: PGS003504

Predicted Trait
Reported Trait Ever taken cannabis
Mapped Trait(s) Cannabis use (EFO_0007585)
Released in PGS Catalog: April 12, 2023
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Score Details

Score Construction
PGS Name cont-decay-ever_cannabis
Development Method
Name LDpred2-auto
Parameters vec_p_init = seq_log(1e-4, 0.9, length.out = 10), burn_in = 100, num_iter = 500, report_step = 5
Variants
Original Genome Build GRCh37
Number of Variants 979,739
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000457
Citation (link to publication) Ding Y et al. bioRxiv (2022) Preprint
Ancestry Distribution
Score Development/Training
European: 100%
108,995 individuals (100%)
PGS Evaluation
European: 44.4%
African: 22.2%
East Asian: 11.1%
Greater Middle Eastern: 11.1%
South Asian: 11.1%
9 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
— 108,995 individuals,
0.44 % Male samples
 European UKB — Mean = 56.4 years
Sd = 7.6 years		 — white British —

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
PPM017600 PSS010613|
European Ancestry|
1,938 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017432 PSS010865|
European Ancestry|
5,883 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM017516 PSS010781|
European Ancestry|
1,104 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017684 PSS010529|
Greater Middle Eastern Ancestry|
186 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017768 PSS010193|
European Ancestry|
837 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —
PPM017852 PSS010445|
South Asian Ancestry|
784 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017936 PSS010361|
East Asian Ancestry|
406 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM018020 PSS010277|
African Ancestry|
333 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM018104 PSS010697|
African Ancestry|
481 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Ever taken cannabis — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —

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
PSS010529 — — 186 individuals,
57.0 % Male samples
 Mean = 54.0 years
Sd = 7.2 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —
PSS010277 — — 333 individuals,
32.0 % Male samples
 Mean = 50.5 years
Sd = 7.5 years		 African American or Afro-Caribbean Caribbean UKB —
PSS010697 — — 481 individuals,
46.0 % Male samples
 Mean = 50.8 years
Sd = 7.2 years		 African unspecified Nigerian UKB —
PSS010445 — — 784 individuals,
57.0 % Male samples
 Mean = 52.7 years
Sd = 8.2 years		 South Asian Indian UKB —
PSS010193 — — 837 individuals,
43.0 % Male samples
 Mean = 57.7 years
Sd = 7.0 years		 European Ashkenazi UKB —
PSS010865 — — 5,883 individuals,
45.0 % Male samples
 Mean = 56.5 years
Sd = 7.6 years		 European white British UKB —
PSS010613 — — 1,938 individuals,
41.0 % Male samples
 Mean = 54.1 years
Sd = 8.1 years		 European Italian UKB —
PSS010361 — — 406 individuals,
25.0 % Male samples
 Mean = 52.3 years
Sd = 7.3 years		 East Asian Chinese UKB —
PSS010781 — — 1,104 individuals,
33.0 % Male samples
 Mean = 54.1 years
Sd = 7.3 years		 European Polish UKB —