Polygenic Score (PGS) ID: PGS001157

Predicted Trait
Reported Trait Impedance (right leg)
Mapped Trait(s) body composition measurement (EFO_0005106)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI23107
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_INI23107
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 30,300
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%
265,397 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
— 265,397 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
PPM008507 PSS005066|
African Ancestry|
6,310 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of leg (R) — — R²: 0.10262 [0.08864, 0.11659]
Incremental R2 (full-covars): 0.02186
PGS R2 (no covariates): 0.02948 [0.02138, 0.03758]		 age, sex, UKB array type, Genotype PCs —
PPM008508 PSS005067|
East Asian Ancestry|
1,681 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of leg (R) — — R²: 0.29891 [0.26259, 0.33523]
Incremental R2 (full-covars): 0.03502
PGS R2 (no covariates): 0.04108 [0.02267, 0.0595]		 age, sex, UKB array type, Genotype PCs —
PPM008509 PSS005068|
European Ancestry|
24,475 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of leg (R) — — R²: 0.28612 [0.27664, 0.2956]
Incremental R2 (full-covars): 0.09428
PGS R2 (no covariates): 0.09552 [0.08858, 0.10246]		 age, sex, UKB array type, Genotype PCs —
PPM008510 PSS005069|
South Asian Ancestry|
7,653 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of leg (R) — — R²: 0.21686 [0.20071, 0.23301]
Incremental R2 (full-covars): 0.07215
PGS R2 (no covariates): 0.07533 [0.06409, 0.08656]		 age, sex, UKB array type, Genotype PCs —
PPM008511 PSS005070|
European Ancestry|
66,310 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of leg (R) — — R²: 0.29573 [0.28995, 0.30151]
Incremental R2 (full-covars): 0.10489
PGS R2 (no covariates): 0.10727 [0.10286, 0.11169]		 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
PSS005066 — — 6,310 individuals — African unspecified — UKB —
PSS005067 — — 1,681 individuals — East Asian — UKB —
PSS005068 — — 24,475 individuals — European non-white British ancestry UKB —
PSS005069 — — 7,653 individuals — South Asian — UKB —
PSS005070 — — 66,310 individuals — European white British ancestry UKB Testing cohort (heldout set)