Polygenic Score (PGS) ID: PGS002387

Predicted Trait
Reported Trait Bone Mineral Density
Mapped Trait(s) bone density (EFO_0003923)
Released in PGS Catalog: June 9, 2022
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 bmd_HEEL_TSCOREz.P+T.0.0001
Development Method
Name Pruning and Thresholding (P+T)
Parameters p < 0.0001
Variants
Original Genome Build GRCh37
Number of Variants 25,831
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000332
Citation (link to publication) Weissbrod O et al. Nat Genet (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
327,738 individuals (100%)
PGS Evaluation
African: 25%
East Asian: 25%
European: 25%
South Asian: 25%
4 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
327,738 individuals European UKB

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
PPM013368 PSS009703|
African Ancestry|
5,639 individuals
PGP000332 |
Weissbrod O et al. Nat Genet (2022)
Reported Trait: Bone Mineral Density Incremental R2 (full model vs. covariates alone): 0.0014 age, sex, age‚age*sex, assessment center, genotyping array, 10 PCs
PPM013417 PSS009704|
East Asian Ancestry|
889 individuals
PGP000332 |
Weissbrod O et al. Nat Genet (2022)
Reported Trait: Bone Mineral Density Incremental R2 (full model vs. covariates alone): 0.0509 age, sex, age‚age*sex, assessment center, genotyping array, 10 PCs
PPM013515 PSS009706|
South Asian Ancestry|
7,588 individuals
PGP000332 |
Weissbrod O et al. Nat Genet (2022)
Reported Trait: Bone Mineral Density Incremental R2 (full model vs. covariates alone): 0.0961 age, sex, age‚age*sex, assessment center, genotyping array, 10 PCs
PPM013466 PSS009705|
European Ancestry|
42,030 individuals
PGP000332 |
Weissbrod O et al. Nat Genet (2022)
Reported Trait: Bone Mineral Density Incremental R2 (full model vs. covariates alone): 0.1523 age, sex, age‚age*sex, assessment center, genotyping array, 10 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
PSS009703 5,639 individuals African unspecified UKB
PSS009704 889 individuals East Asian UKB
PSS009705 42,030 individuals European Non-British European UKB
PSS009706 7,588 individuals South Asian UKB