Polygenic Score (PGS) ID: PGS001230

Predicted Trait
Reported Trait Body weight
Mapped Trait(s) body weight (EFO_0004338)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI21002
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_INI21002
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 31,222
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%
268,944 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
— 268,944 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
PPM008664 PSS004916|
African Ancestry|
6,410 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Weight — — R²: 0.0617 [0.05037, 0.07303]
Incremental R2 (full-covars): 0.0214
PGS R2 (no covariates): 0.02742 [0.01959, 0.03524]		 age, sex, UKB array type, Genotype PCs —
PPM008665 PSS004917|
East Asian Ancestry|
1,696 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Weight — — R²: 0.36447 [0.32811, 0.40083]
Incremental R2 (full-covars): 0.00956
PGS R2 (no covariates): 0.0426 [0.02388, 0.06133]		 age, sex, UKB array type, Genotype PCs —
PPM008666 PSS004918|
European Ancestry|
24,804 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Weight — — R²: 0.33164 [0.32208, 0.3412]
Incremental R2 (full-covars): 0.09015
PGS R2 (no covariates): 0.09999 [0.09292, 0.10705]		 age, sex, UKB array type, Genotype PCs —
PPM008667 PSS004919|
South Asian Ancestry|
7,746 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Weight — — R²: 0.2472 [0.23063, 0.26377]
Incremental R2 (full-covars): 0.06508
PGS R2 (no covariates): 0.0633 [0.05287, 0.07374]		 age, sex, UKB array type, Genotype PCs —
PPM008668 PSS004920|
European Ancestry|
67,258 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Weight — — R²: 0.32007 [0.31426, 0.32588]
Incremental R2 (full-covars): 0.1043
PGS R2 (no covariates): 0.10578 [0.10139, 0.11017]		 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
PSS004916 — — 6,410 individuals — African unspecified — UKB —
PSS004917 — — 1,696 individuals — East Asian — UKB —
PSS004918 — — 24,804 individuals — European non-white British ancestry UKB —
PSS004919 — — 7,746 individuals — South Asian — UKB —
PSS004920 — — 67,258 individuals — European white British ancestry UKB Testing cohort (heldout set)