Polygenic Score (PGS) ID: PGS001066

Predicted Trait
Reported Trait Poultry intake
Mapped Trait(s) diet measurement (EFO_0008111)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1001359
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_FC1001359
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,609
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%
269,294 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
— 269,294 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
PPM008088 PSS007551|
African Ancestry|
6,377 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Poultry intake — — PGS R2 (no covariates): 0.00093 [-0.00055, 0.00241]
R²: 0.02159 [0.0146, 0.02858]
Incremental R2 (full-covars): 0.00053		 age, sex, UKB array type, Genotype PCs —
PPM008089 PSS007552|
East Asian Ancestry|
1,655 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Poultry intake — — R²: 0.0497 [0.02962, 0.06977]
Incremental R2 (full-covars): -0.00108
PGS R2 (no covariates): 0.00013 [-0.00097, 0.00123]		 age, sex, UKB array type, Genotype PCs —
PPM008090 PSS007553|
European Ancestry|
24,847 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Poultry intake — — R²: 0.00958 [0.00717, 0.01199]
Incremental R2 (full-covars): 0.0005
PGS R2 (no covariates): 0.00079 [0.00009, 0.00149]		 age, sex, UKB array type, Genotype PCs —
PPM008091 PSS007554|
South Asian Ancestry|
7,623 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Poultry intake — — R²: 0.15633 [0.14156, 0.1711]
Incremental R2 (full-covars): -0.00044
PGS R2 (no covariates): 0.00074 [-0.00046, 0.00195]		 age, sex, UKB array type, Genotype PCs —
PPM008092 PSS007555|
European Ancestry|
67,313 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Poultry intake — — R²: 0.00656 [0.00535, 0.00778]
Incremental R2 (full-covars): 0.0012
PGS R2 (no covariates): 0.00124 [0.00071, 0.00177]		 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
PSS007551 — — 6,377 individuals — African unspecified — UKB —
PSS007552 — — 1,655 individuals — East Asian — UKB —
PSS007553 — — 24,847 individuals — European non-white British ancestry UKB —
PSS007554 — — 7,623 individuals — South Asian — UKB —
PSS007555 — — 67,313 individuals — European white British ancestry UKB Testing cohort (heldout set)