Polygenic Score (PGS) ID: PGS001068

Predicted Trait
Reported Trait Variation in diet
Mapped Trait(s) diet measurement (EFO_0008111)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI1548
Released in PGS Catalog: Oct. 21, 2021
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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_INI1548
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,353
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%
269,106 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
— 269,106 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
PPM008098 PSS004866|
African Ancestry|
6,271 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Variation in diet — — R²: 0.01563 [0.00965, 0.02161]
Incremental R2 (full-covars): 1e-05
PGS R2 (no covariates): 0.00026 [-0.00053, 0.00105]		 age, sex, UKB array type, Genotype PCs —
PPM008099 PSS004867|
East Asian Ancestry|
1,585 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Variation in diet — — R²: 0.04021 [0.02197, 0.05845]
Incremental R2 (full-covars): 0.00116
PGS R2 (no covariates): 0.00216 [-0.00223, 0.00655]		 age, sex, UKB array type, Genotype PCs —
PPM008100 PSS004868|
European Ancestry|
24,750 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Variation in diet — — R²: 0.00852 [0.00625, 0.01079]
Incremental R2 (full-covars): 0.00183
PGS R2 (no covariates): 0.00183 [0.00077, 0.00289]		 age, sex, UKB array type, Genotype PCs —
PPM008101 PSS004869|
South Asian Ancestry|
7,343 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Variation in diet — — R²: 0.01371 [0.00859, 0.01882]
Incremental R2 (full-covars): 0.00049
PGS R2 (no covariates): 0.00066 [-0.00048, 0.00181]		 age, sex, UKB array type, Genotype PCs —
PPM008102 PSS004870|
European Ancestry|
67,259 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Variation in diet — — R²: 0.0081 [0.00675, 0.00944]
Incremental R2 (full-covars): 0.00212
PGS R2 (no covariates): 0.00213 [0.00144, 0.00283]		 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
PSS004866 — — 6,271 individuals — African unspecified — UKB —
PSS004867 — — 1,585 individuals — East Asian — UKB —
PSS004868 — — 24,750 individuals — European non-white British ancestry UKB —
PSS004869 — — 7,343 individuals — South Asian — UKB —
PSS004870 — — 67,259 individuals — European white British ancestry UKB Testing cohort (heldout set)