Polygenic Score (PGS) ID: PGS001228

Predicted Trait
Reported Trait Body mass index (BMI)
Mapped Trait(s) body mass index (EFO_0004340)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI21001
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_INI21001
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 27,126
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%
268,856 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
— 268,856 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
PPM008654 PSS004911|
African Ancestry|
6,398 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: BMI — — R²: 0.06264 [0.05124, 0.07404]
Incremental R2 (full-covars): 0.01685
PGS R2 (no covariates): 0.02029 [0.0135, 0.02707]		 age, sex, UKB array type, Genotype PCs —
PPM008655 PSS004912|
East Asian Ancestry|
1,696 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: BMI — — R²: 0.16636 [0.13414, 0.19858]
Incremental R2 (full-covars): 0.03119
PGS R2 (no covariates): 0.06222 [0.04005, 0.08439]		 age, sex, UKB array type, Genotype PCs —
PPM008656 PSS004913|
European Ancestry|
24,795 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: BMI — — R²: 0.13175 [0.12392, 0.13958]
Incremental R2 (full-covars): 0.09741
PGS R2 (no covariates): 0.10338 [0.09622, 0.11054]		 age, sex, UKB array type, Genotype PCs —
PPM008657 PSS004914|
South Asian Ancestry|
7,639 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: BMI — — R²: 0.0872 [0.07527, 0.09914]
Incremental R2 (full-covars): 0.06488
PGS R2 (no covariates): 0.0648 [0.05426, 0.07534]		 age, sex, UKB array type, Genotype PCs —
PPM008658 PSS004915|
European Ancestry|
67,235 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: BMI — — R²: 0.12084 [0.11623, 0.12545]
Incremental R2 (full-covars): 0.10799
PGS R2 (no covariates): 0.11052 [0.10606, 0.11499]		 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
PSS004911 — — 6,398 individuals — African unspecified — UKB —
PSS004912 — — 1,696 individuals — East Asian — UKB —
PSS004913 — — 24,795 individuals — European non-white British ancestry UKB —
PSS004914 — — 7,639 individuals — South Asian — UKB —
PSS004915 — — 67,235 individuals — European white British ancestry UKB Testing cohort (heldout set)