Polygenic Score (PGS) ID: PGS003474

Predicted Trait
Reported Trait LDL levels
Mapped Trait(s) low density lipoprotein cholesterol measurement (EFO_0004611)
Released in PGS Catalog: March 24, 2023
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 LDPred2_LDL
Development Method
Name LDpred2
Parameters INFO score>0.8, MAF >=0.01
Variants
Original Genome Build GRCh38
Number of Variants 842,513
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000456
Citation (link to publication) Zhang Y et al. EBioMedicine (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 72.4%
African: 19.3%
Hispanic or Latin American: 8.3%
297,626 individuals (100%)
PGS Evaluation
Hispanic or Latin American: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST006612
Europe PMC: 30275531
 215,551 individuals European NR
GWAS Catalog: GCST006612
Europe PMC: 30275531
 57,332 individuals African American or Afro-Caribbean NR
GWAS Catalog: GCST006612
Europe PMC: 30275531
 24,743 individuals Hispanic or Latin American 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
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM017284 PSS010185|
Hispanic or Latin American Ancestry|
1,115 individuals
 PGP000456 |
Zhang Y et al. EBioMedicine (2022)
 Reported Trait: Respiratory event index β: 0.001 (0.01) — — Age, sex, center, 5 genetic PCs, Hispanic/Latino background, BMI —
PPM017307 PSS010185|
Hispanic or Latin American Ancestry|
1,115 individuals
 PGP000456 |
Zhang Y et al. EBioMedicine (2022)
 Reported Trait: Obstructive sleep apnea β: -0.023 (0.025) — — Age, sex, center, 5 genetic PCs, Hispanic/Latino background, BMI —

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
PSS010185 — — 1,115 individuals,
41.1 % Male samples
 Mean = 46.18 years Hispanic or Latin American — HCHS, SOL —