Polygenic Score (PGS) ID: PGS002426

Predicted Trait
Reported Trait Type 2 diabetes (T2D)
Mapped Trait(s) type 2 diabetes mellitus (MONDO_0005148)
Released in PGS Catalog: June 9, 2022
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Score Details

Score Construction
PGS Name disease_T2D.P+T.0.0001
Development Method
Name Pruning and Thresholding (P+T)
Parameters p < 0.0001
Variants
Original Genome Build GRCh37
Number of Variants 3,947
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000332
Citation (link to publication) Weissbrod O et al. Nat Genet (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
337,488 individuals (100%)
PGS Evaluation
African: 25%
East Asian: 25%
European: 25%
South Asian: 25%
4 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
— 337,488 individuals European 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
PPM013407 PSS009859|
African Ancestry|
6,503 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Type 2 diabetes — — Incremental R2 (full model vs. covariates alone): 0.0001 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013505 PSS009861|
European Ancestry|
43,505 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Type 2 diabetes — — Incremental R2 (full model vs. covariates alone): 0.0 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013554 PSS009862|
South Asian Ancestry|
8,098 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Type 2 diabetes — — Incremental R2 (full model vs. covariates alone): 0.0 age, sex, age*sex, assessment center, genotyping array, 10 PCs —
PPM013456 PSS009860|
East Asian Ancestry|
922 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Type 2 diabetes — — Incremental R2 (full model vs. covariates alone): 0.0032 age, sex, age*sex, assessment center, genotyping array, 10 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
PSS009860 — — 922 individuals — East Asian — UKB —
PSS009861 — — 43,505 individuals — European Non-British European UKB —
PSS009862 — — 8,098 individuals — South Asian — UKB —
PSS009859 — — 6,503 individuals — African unspecified — UKB —