Polygenic Score (PGS) ID: PGS003974

Predicted Trait
Reported Trait Low density lipoprotein cholesterol levels
Mapped Trait(s) low density lipoprotein cholesterol measurement (EFO_0004611)
Released in PGS Catalog: Nov. 1, 2023
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Score Details

Score Construction
PGS Name AFR_without-UKB_LDL
Development Method
Name PRS-CSx
Parameters default
Original Genome Build GRCh37
Number of Variants 886,257
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000514
Citation (link to publication) Hassanin E et al. medRxiv (2023) Preprint
Ancestry Distribution
Source of Variant
Associations (GWAS)
Multi-ancestry (excluding European): 100%
  • African
99,432 individuals (100%)
PGS Evaluation
African: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST90239656
Europe PMC: 34887591
99,432 individuals African American or Afro-Caribbean, African unspecified 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
PPM019145 PSS011206|
African Ancestry|
3,802 individuals
PGP000514 |
Hassanin E et al. medRxiv (2023)
Reported Trait: LDL level : 9.2 %

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
PSS011206 3,802 individuals,
45.9 % Male samples
African American or Afro-Caribbean UKB