Polygenic Score (PGS) ID: PGS001145

Predicted Trait
Reported Trait Arm fat mass (R)
Mapped Trait(s) fat body mass (EFO_0005409)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI23120
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_INI23120
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 23,528
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%
265,106 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
— 265,106 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
PPM008452 PSS005126|
African Ancestry|
6,302 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat mass (R) — — R²: 0.20498 [0.18748, 0.22247]
Incremental R2 (full-covars): 0.0099
PGS R2 (no covariates): 0.01125 [0.00615, 0.01635]		 age, sex, UKB array type, Genotype PCs —
PPM008453 PSS005127|
East Asian Ancestry|
1,678 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat mass (R) — — R²: 0.1096 [0.08166, 0.13753]
Incremental R2 (full-covars): 0.02033
PGS R2 (no covariates): 0.04736 [0.02771, 0.06701]		 age, sex, UKB array type, Genotype PCs —
PPM008454 PSS005128|
European Ancestry|
24,456 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat mass (R) — — R²: 0.11299 [0.10558, 0.12039]
Incremental R2 (full-covars): 0.07263
PGS R2 (no covariates): 0.07483 [0.06855, 0.08112]		 age, sex, UKB array type, Genotype PCs —
PPM008455 PSS005129|
South Asian Ancestry|
7,649 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat mass (R) — — R²: 0.1687 [0.15358, 0.18381]
Incremental R2 (full-covars): 0.04455
PGS R2 (no covariates): 0.04978 [0.04039, 0.05916]		 age, sex, UKB array type, Genotype PCs —
PPM008456 PSS005130|
European Ancestry|
66,249 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Arm fat mass (R) — — R²: 0.13668 [0.13186, 0.1415]
Incremental R2 (full-covars): 0.07881
PGS R2 (no covariates): 0.07963 [0.07571, 0.08355]		 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
PSS005126 — — 6,302 individuals — African unspecified — UKB —
PSS005127 — — 1,678 individuals — East Asian — UKB —
PSS005128 — — 24,456 individuals — European non-white British ancestry UKB —
PSS005129 — — 7,649 individuals — South Asian — UKB —
PSS005130 — — 66,249 individuals — European white British ancestry UKB Testing cohort (heldout set)