Polygenic Score (PGS) ID: PGS001057

Predicted Trait
Reported Trait Cereal consumption
Mapped Trait(s) diet measurement (EFO_0008111)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI1458
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_INI1458
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 4,882
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%
259,110 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
— 259,110 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
PPM008043 PSS004846|
African Ancestry|
5,708 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Cereal intake — — R²: 0.00609 [0.00232, 0.00986]
Incremental R2 (full-covars): -0.00296
PGS R2 (no covariates): 4e-05 [-0.00026, 0.00033]		 age, sex, UKB array type, Genotype PCs —
PPM008044 PSS004847|
East Asian Ancestry|
1,426 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Cereal intake — — R²: 0.03238 [0.01588, 0.04888]
Incremental R2 (full-covars): 0.00542
PGS R2 (no covariates): 0.00483 [-0.00173, 0.01138]		 age, sex, UKB array type, Genotype PCs —
PPM008045 PSS004848|
European Ancestry|
23,372 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Cereal intake — — R²: 0.03202 [0.02771, 0.03632]
Incremental R2 (full-covars): 0.0053
PGS R2 (no covariates): 0.00607 [0.00415, 0.00799]		 age, sex, UKB array type, Genotype PCs —
PPM008046 PSS004849|
South Asian Ancestry|
7,023 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Cereal intake — — R²: 0.01676 [0.01112, 0.02239]
Incremental R2 (full-covars): 0.00168
PGS R2 (no covariates): 0.0026 [0.00035, 0.00485]		 age, sex, UKB array type, Genotype PCs —
PPM008047 PSS004850|
European Ancestry|
64,778 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Cereal intake — — R²: 0.0216 [0.01943, 0.02377]
Incremental R2 (full-covars): 0.00622
PGS R2 (no covariates): 0.0067 [0.00547, 0.00792]		 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
PSS004846 — — 5,708 individuals — African unspecified — UKB —
PSS004847 — — 1,426 individuals — East Asian — UKB —
PSS004848 — — 23,372 individuals — European non-white British ancestry UKB —
PSS004849 — — 7,023 individuals — South Asian — UKB —
PSS004850 — — 64,778 individuals — European white British ancestry UKB Testing cohort (heldout set)