Polygenic Score (PGS) ID: PGS001165

Predicted Trait
Reported Trait Arm fat free mass (L)
Mapped Trait(s) lean body mass (EFO_0004995)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI23125
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_INI23125
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 30,360
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%
265,057 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
— 265,057 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
PPM008548 PSS005154|
South Asian Ancestry|
7,647 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat-free mass (L) — — R²: 0.66424 [0.65212, 0.67635]
Incremental R2 (full-covars): 0.03058
PGS R2 (no covariates): 0.02351 [0.01688, 0.03014]		 age, sex, UKB array type, Genotype PCs —
PPM008545 PSS005151|
African Ancestry|
6,299 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat-free mass (L) — — R²: 0.5894 [0.57408, 0.60472]
Incremental R2 (full-covars): 0.00951
PGS R2 (no covariates): 0.01764 [0.0113, 0.02399]		 age, sex, UKB array type, Genotype PCs —
PPM008546 PSS005152|
East Asian Ancestry|
1,678 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat-free mass (L) — — R²: 0.74448 [0.72359, 0.76538]
Incremental R2 (full-covars): 0.0034
PGS R2 (no covariates): 0.01331 [0.00252, 0.0241]		 age, sex, UKB array type, Genotype PCs —
PPM008547 PSS005153|
European Ancestry|
24,457 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat-free mass (L) — — R²: 0.73779 [0.7322, 0.74339]
Incremental R2 (full-covars): 0.03937
PGS R2 (no covariates): 0.0417 [0.03684, 0.04656]		 age, sex, UKB array type, Genotype PCs —
PPM008549 PSS005155|
European Ancestry|
66,234 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat-free mass (L) — — R²: 0.73264 [0.72918, 0.73609]
Incremental R2 (full-covars): 0.04461
PGS R2 (no covariates): 0.04544 [0.04237, 0.04851]		 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
PSS005151 — — 6,299 individuals — African unspecified — UKB —
PSS005152 — — 1,678 individuals — East Asian — UKB —
PSS005153 — — 24,457 individuals — European non-white British ancestry UKB —
PSS005154 — — 7,647 individuals — South Asian — UKB —
PSS005155 — — 66,234 individuals — European white British ancestry UKB Testing cohort (heldout set)