Polygenic Score (PGS) ID: PGS001161

Predicted Trait
Reported Trait Whole body impedance
Mapped Trait(s) body composition measurement (EFO_0005106)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI23106
Released in PGS Catalog: Oct. 21, 2021
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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_INI23106
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 32,218
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%
265,388 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
— 265,388 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
PPM008527 PSS005061|
African Ancestry|
6,310 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of whole body — — R²: 0.29554 [0.27692, 0.31415]
Incremental R2 (full-covars): 0.01724
PGS R2 (no covariates): 0.02715 [0.01936, 0.03494]		 age, sex, UKB array type, Genotype PCs —
PPM008528 PSS005062|
East Asian Ancestry|
1,681 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of whole body — — R²: 0.51675 [0.48383, 0.54967]
Incremental R2 (full-covars): 0.02489
PGS R2 (no covariates): 0.02929 [0.01355, 0.04503]		 age, sex, UKB array type, Genotype PCs —
PPM008529 PSS005063|
European Ancestry|
24,471 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of whole body — — R²: 0.50936 [0.50067, 0.51806]
Incremental R2 (full-covars): 0.07566
PGS R2 (no covariates): 0.07383 [0.06758, 0.08008]		 age, sex, UKB array type, Genotype PCs —
PPM008530 PSS005064|
South Asian Ancestry|
7,651 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of whole body — — R²: 0.44125 [0.42482, 0.45769]
Incremental R2 (full-covars): 0.05615
PGS R2 (no covariates): 0.05272 [0.04309, 0.06235]		 age, sex, UKB array type, Genotype PCs —
PPM008531 PSS005065|
European Ancestry|
66,304 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Impedance of whole body — — R²: 0.51927 [0.51404, 0.5245]
Incremental R2 (full-covars): 0.08047
PGS R2 (no covariates): 0.08089 [0.07694, 0.08483]		 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
PSS005061 — — 6,310 individuals — African unspecified — UKB —
PSS005062 — — 1,681 individuals — East Asian — UKB —
PSS005063 — — 24,471 individuals — European non-white British ancestry UKB —
PSS005064 — — 7,651 individuals — South Asian — UKB —
PSS005065 — — 66,304 individuals — European white British ancestry UKB Testing cohort (heldout set)