Polygenic Score (PGS) ID: PGS001034

Predicted Trait
Reported Trait Salt added to food
Mapped Trait(s) diet measurement (EFO_0008111)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC10001478
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_QT_FC10001478
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 6,651
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%
269,679 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
— 269,679 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
PPM007933 PSS007506|
African Ancestry|
6,428 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Salt added to food — — R²: 0.01628 [0.01018, 0.02238]
Incremental R2 (full-covars): -0.00168
PGS R2 (no covariates): 0.00089 [-0.00056, 0.00234]		 age, sex, UKB array type, Genotype PCs —
PPM007934 PSS007507|
East Asian Ancestry|
1,671 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Salt added to food — — R²: 0.04497 [0.02578, 0.06416]
Incremental R2 (full-covars): 0.00495
PGS R2 (no covariates): 0.00478 [-0.00174, 0.0113]		 age, sex, UKB array type, Genotype PCs —
PPM007935 PSS007508|
European Ancestry|
24,900 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Salt added to food — — R²: 0.02412 [0.02036, 0.02789]
Incremental R2 (full-covars): 0.01326
PGS R2 (no covariates): 0.01337 [0.01054, 0.01621]		 age, sex, UKB array type, Genotype PCs —
PPM007936 PSS007509|
South Asian Ancestry|
7,681 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Salt added to food — — R²: 0.01555 [0.01012, 0.02099]
Incremental R2 (full-covars): -0.00122
PGS R2 (no covariates): 0.00138 [-0.00026, 0.00302]		 age, sex, UKB array type, Genotype PCs —
PPM007937 PSS007510|
European Ancestry|
67,416 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Salt added to food — — R²: 0.02452 [0.02221, 0.02682]
Incremental R2 (full-covars): 0.01564
PGS R2 (no covariates): 0.01646 [0.01455, 0.01836]		 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
PSS007506 — — 6,428 individuals — African unspecified — UKB —
PSS007507 — — 1,671 individuals — East Asian — UKB —
PSS007508 — — 24,900 individuals — European non-white British ancestry UKB —
PSS007509 — — 7,681 individuals — South Asian — UKB —
PSS007510 — — 67,416 individuals — European white British ancestry UKB Testing cohort (heldout set)