Polygenic Score (PGS) ID: PGS001118

Predicted Trait
Reported Trait Taking other prescription medications
Mapped Trait(s) drug use measurement (EFO_0007010)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/BIN_FC10002492
Released in PGS Catalog: Oct. 21, 2021
Download Score FTP directory
Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name GBE_BIN_FC10002492
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,846
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
269,058 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 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
—
[
  • 132,971 cases
  • , 136,087 controls
]
 European UKB — — — white British ancestry —

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
PPM008328 PSS003721|
African Ancestry|
6,309 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Taking other prescription medications — AUROC: 0.62398 [0.61004, 0.63792] R²: 0.06129
Incremental AUROC (full-covars): -0.00126
PGS R2 (no covariates): 0.00017
PGS AUROC (no covariates): 0.50683 [0.49237, 0.52129]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008329 PSS003722|
East Asian Ancestry|
1,626 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Taking other prescription medications — AUROC: 0.63204 [0.60343, 0.66066] R²: 0.06971
Incremental AUROC (full-covars): -0.00329
PGS R2 (no covariates): 0.00015
PGS AUROC (no covariates): 0.49407 [0.46467, 0.52347]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008330 PSS003723|
European Ancestry|
24,781 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Taking other prescription medications — AUROC: 0.64338 [0.63654, 0.65022] R²: 0.08116
Incremental AUROC (full-covars): 0.00469
PGS R2 (no covariates): 0.00551
PGS AUROC (no covariates): 0.537 [0.52981, 0.54419]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008331 PSS003724|
South Asian Ancestry|
7,473 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Taking other prescription medications — AUROC: 0.65224 [0.63989, 0.66459] R²: 0.09172
Incremental AUROC (full-covars): 0.00168
PGS R2 (no covariates): 0.00174
PGS AUROC (no covariates): 0.52005 [0.50697, 0.53313]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008332 PSS003725|
European Ancestry|
67,263 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Taking other prescription medications — AUROC: 0.61983 [0.61562, 0.62403] R²: 0.05769
Incremental AUROC (full-covars): 0.00393
PGS R2 (no covariates): 0.00443
PGS AUROC (no covariates): 0.53239 [0.52804, 0.53675]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

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
PSS003721 — —
[
  • 2,593 cases
  • , 3,716 controls
]
 — African unspecified — UKB —
PSS003722 — —
[
  • 544 cases
  • , 1,082 controls
]
 — East Asian — UKB —
PSS003723 — —
[
  • 11,337 cases
  • , 13,444 controls
]
 — European non-white British ancestry UKB —
PSS003724 — —
[
  • 3,703 cases
  • , 3,770 controls
]
 — South Asian — UKB —
PSS003725 — —
[
  • 33,265 cases
  • , 33,998 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)