Polygenic Score (PGS) ID: PGS001518

Predicted Trait
Reported Trait Portion size
Mapped Trait(s) diet measurement (EFO_0008111)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI100010
Released in PGS Catalog: Nov. 25, 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_INI100010
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 591
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%
116,930 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
— 116,930 individuals European UKB — — — white British ancestry Training + validation cohort (train_val)

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
PPM005225 PSS004766|
African Ancestry|
2,091 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Portion size — — R²: 0.02984 [0.02169, 0.03798]
Incremental R2 (full-covars): 0.00275
PGS R2 (no covariates): 0.00229 [-0.00003, 0.00461]		 age, sex, UKB array type, Genotype PCs —
PPM005226 PSS004767|
East Asian Ancestry|
613 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Portion size — — R²: 0.08303 [0.05799, 0.10806]
Incremental R2 (full-covars): 0.00287
PGS R2 (no covariates): 0.00511 [-0.00163, 0.01184]		 age, sex, UKB array type, Genotype PCs —
PPM005227 PSS004768|
European Ancestry|
11,475 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Portion size — — R²: 0.05028 [0.04499, 0.05557]
Incremental R2 (full-covars): 0.00227
PGS R2 (no covariates): 0.00184 [0.00078, 0.0029]		 age, sex, UKB array type, Genotype PCs —
PPM005228 PSS004769|
South Asian Ancestry|
2,331 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Portion size — — R²: 0.02167 [0.01529, 0.02805]
Incremental R2 (full-covars): -0.00034
PGS R2 (no covariates): 0.00013 [-0.00038, 0.00064]		 age, sex, UKB array type, Genotype PCs —
PPM005229 PSS004770|
European Ancestry|
29,044 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Portion size — — R²: 0.05298 [0.04969, 0.05627]
Incremental R2 (full-covars): 0.00155
PGS R2 (no covariates): 0.00164 [0.00103, 0.00226]		 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
PSS004766 — — 2,091 individuals — African unspecified — UKB —
PSS004767 — — 613 individuals — East Asian — UKB —
PSS004768 — — 11,475 individuals — European non-white British ancestry UKB —
PSS004769 — — 2,331 individuals — South Asian — UKB —
PSS004770 — — 29,044 individuals — European white British ancestry UKB Testing cohort (heldout set)