Polygenic Score (PGS) ID: PGS003404

Predicted Trait
Reported Trait LDL cholesterol
Mapped Trait(s) low density lipoprotein cholesterol measurement (EFO_0004611)
Released in PGS Catalog: Jan. 19, 2023
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Score Details

Score Construction
Development Method
Name Genome-wide significant SNPs
Parameters NR
Original Genome Build NR
Number of Variants 10
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000421
Citation (link to publication) Wang J et al. Arterioscler Thromb Vasc Biol (2016)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
19,840 individuals (100%)
PGS Evaluation
European: 50%
Multi-ancestry (including European): 50%
  • South Asian
  • European
  • African
  • Not Reported
2 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST000287
Europe PMC: 19060906
19,840 individuals European NR

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
Performance Source Trait PGS Effect Sizes
(per SD change)
Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM017043 PSS010103|
Multi-ancestry (including European)|
313 individuals
PGP000421 |
Wang J et al. Arterioscler Thromb Vasc Biol (2016)
Reported Trait: FH mutation-negative with severe hypercholesterolemia OR: 3.02 [1.61, 5.68]
PPM017047 PSS010104|
European Ancestry|
89,528 individuals
PGP000422 |
Vanhoye X et al. Transl Res (2022)
Reported Trait: LDL-c blood concentration β: 0.16 [0.15, 0.16] AUROC: 0.6072 [0.6, 0.614] : 0.09317 Age, BMI, sex, age

Evaluated Samples

PGS Sample Set ID
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
PSS010103 313 individuals,
41.5 % Male samples
Mean = 51.0 years South Asian, European, African unspecified, NR South Asian, European, African, NR NR Ontario hypercholesterolemia cohort
PSS010104 89,528 individuals European UKB