Polygenic Score (PGS) ID: PGS003822

Predicted Trait
Reported Trait Total cholesterol
Mapped Trait(s) total cholesterol measurement (EFO_0004574)
Released in PGS Catalog: Sept. 1, 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 TC_AFR_weighted_LDpred2
Development Method
Name weighted_LDpred2
Parameters Linear weight combination of best single ancestry LDpred2
Variants
Original Genome Build GRCh37
Number of Variants 1,687,775
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000489
Citation (link to publication) Zhang H et al. Nat Genet (2023)
Ancestry Distribution
Source of Variant
Associations (GWAS)
Multi-ancestry (including European): 100%
  • European
  • African
  • Hispanic or Latin American
  • East Asian
  • South Asian
1,251,910 individuals (100%)
Score Development/Training
African: 100%
4,299 individuals (100%)
PGS Evaluation
African: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
Europe PMC: 34887591
1,251,910 individuals European, African American or Afro-Caribbean, Hispanic or Latin American, East Asian, South Asian NR
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
4,299 individuals,
42.0 % Male samples
African American or Afro-Caribbean
(African American)
UKB Mean = 51.82 years
Sd = 8.06 years

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
PPM018629 PSS011047|
African Ancestry|
4,302 individuals
PGP000489 |
Zhang H et al. Nat Genet (2023)
Reported Trait: Total cholesterol : 0.07122

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
PSS011047 4,302 individuals,
42.0 % Male samples
Mean = 51.82 years
Sd = 8.06 years
African American or Afro-Caribbean
(African American)
UKB