Polygenic Score (PGS) ID: PGS001052

Predicted Trait
Reported Trait Time spend outdoors in summer
Mapped Trait(s) time spent outdoors measurement (EFO_0600081)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI1050
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_INI1050
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 5,661
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%
247,369 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
— 247,369 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
PPM008018 PSS004786|
African Ancestry|
5,250 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Time spend outdoors in summer — — R²: 0.01643 [0.0103, 0.02256]
Incremental R2 (full-covars): -0.00169
PGS R2 (no covariates): 0.00077 [-0.00058, 0.00213]		 age, sex, UKB array type, Genotype PCs —
PPM008019 PSS004787|
East Asian Ancestry|
1,276 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Time spend outdoors in summer — — R²: 0.02297 [0.00894, 0.037]
Incremental R2 (full-covars): -0.0142
PGS R2 (no covariates): 0.00141 [-0.00214, 0.00497]		 age, sex, UKB array type, Genotype PCs —
PPM008020 PSS004788|
European Ancestry|
22,460 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Time spend outdoors in summer — — R²: 0.05435 [0.04887, 0.05982]
Incremental R2 (full-covars): 0.00811
PGS R2 (no covariates): 0.01058 [0.00805, 0.01311]		 age, sex, UKB array type, Genotype PCs —
PPM008021 PSS004789|
South Asian Ancestry|
6,295 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Time spend outdoors in summer — — R²: 0.02272 [0.0162, 0.02924]
Incremental R2 (full-covars): -0.00041
PGS R2 (no covariates): 0.00225 [0.00015, 0.00435]		 age, sex, UKB array type, Genotype PCs —
PPM008022 PSS004790|
European Ancestry|
61,863 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Time spend outdoors in summer — — R²: 0.05766 [0.05425, 0.06108]
Incremental R2 (full-covars): 0.01124
PGS R2 (no covariates): 0.01129 [0.0097, 0.01287]		 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
PSS004786 — — 5,250 individuals — African unspecified — UKB —
PSS004787 — — 1,276 individuals — East Asian — UKB —
PSS004788 — — 22,460 individuals — European non-white British ancestry UKB —
PSS004789 — — 6,295 individuals — South Asian — UKB —
PSS004790 — — 61,863 individuals — European white British ancestry UKB Testing cohort (heldout set)