Polygenic Score (PGS) ID: PGS001158

Predicted Trait
Reported Trait Left leg mass (predicted)
Mapped Trait(s) body composition measurement (EFO_0005106)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI23118
Released in PGS Catalog: Oct. 21, 2021
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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 GBE_INI23118
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 30,421
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
265,129 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 Sample Sets

Development Samples

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
— 265,129 individuals European UKB — — — white British ancestry —

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
PPM008512 PSS005116|
African Ancestry|
6,303 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leg pred. mass (L) — — R²: 0.54551 [0.52919, 0.56183]
Incremental R2 (full-covars): 0.0082
PGS R2 (no covariates): 0.01474 [0.00892, 0.02055]		 age, sex, UKB array type, Genotype PCs —
PPM008513 PSS005117|
East Asian Ancestry|
1,679 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leg pred. mass (L) — — Incremental R2 (full-covars): 0.00295
R²: 0.73419 [0.71261, 0.75577]
PGS R2 (no covariates): 0.01537 [0.0038, 0.02694]		 age, sex, UKB array type, Genotype PCs —
PPM008514 PSS005118|
European Ancestry|
24,460 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leg pred. mass (L) — — R²: 0.70945 [0.70337, 0.71553]
Incremental R2 (full-covars): 0.04284
PGS R2 (no covariates): 0.04473 [0.03971, 0.04975]		 age, sex, UKB array type, Genotype PCs —
PPM008515 PSS005119|
South Asian Ancestry|
7,649 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leg pred. mass (L) — — R²: 0.66073 [0.64852, 0.67294]
Incremental R2 (full-covars): 0.03274
PGS R2 (no covariates): 0.02543 [0.01855, 0.03231]		 age, sex, UKB array type, Genotype PCs —
PPM008516 PSS005120|
European Ancestry|
66,253 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leg pred. mass (L) — — R²: 0.7033 [0.69954, 0.70705]
Incremental R2 (full-covars): 0.0494
PGS R2 (no covariates): 0.04898 [0.0458, 0.05216]		 age, sex, UKB array type, Genotype 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
PSS005116 — — 6,303 individuals — African unspecified — UKB —
PSS005117 — — 1,679 individuals — East Asian — UKB —
PSS005118 — — 24,460 individuals — European non-white British ancestry UKB —
PSS005119 — — 7,649 individuals — South Asian — UKB —
PSS005120 — — 66,253 individuals — European white British ancestry UKB Testing cohort (heldout set)