Polygenic Score (PGS) ID: PGS005108

Predicted Trait
Reported Trait Type 2 diabetes (T2D)
Mapped Trait(s) type 2 diabetes mellitus (MONDO_0005148)
Released in PGS Catalog: Dec. 16, 2024
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Score Details

Score Construction
PGS Name PRSdiabetes
Development Method
Name Genome-wide significant SNPs
Parameters p<0.2
Variants
Original Genome Build NR
Number of Variants 42,845
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000697
Citation (link to publication) Takase M et al. J Atheroscler Thromb (2023)
Ancestry Distribution
Source of Variant
Associations (GWAS)
East Asian: 100%
191,764 individuals (100%)
Score Development/Training
East Asian: 100%
1,936 individuals (100%)
PGS Evaluation
East Asian: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST007847
Europe PMC: 30718926
 191,764 individuals East Asian BBJ
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
— 1,936 individuals East Asian TMM Diabetes was defined as non-fasting glucose ≥ 200 mg/dL, HbA1c ≥ 6.5% (48 mmol/mol), and/or self-reported treatment for diabetes — — — —

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
PPM022294 PSS011905|
East Asian Ancestry|
7,745 individuals
 PGP000697 |
Takase M et al. J Atheroscler Thromb (2023)
 Reported Trait: Prevalent diabetes — — Odds ratio (OR, high vs low PGS tertile): 3.16 [2.45, 4.12] Age, sex, 6 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
PSS011905 Diabetes was defined as non-fasting glucose ≥ 200 mg/dL, HbA1c ≥ 6.5% (48 mmol/mol), and/or self-reported treatment for diabetes — 7,745 individuals,
23.7 % Male samples
 Mean = 57.3 years
Sd = 13.4 years		 East Asian — TMM —