Polygenic Score (PGS) ID: PGS001073

Predicted Trait
Reported Trait Duration of walks
Mapped Trait(s) physical activity measurement (EFO_0008002)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI874
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_INI874
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,323
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%
233,328 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
— 233,328 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
PPM008123 PSS007481|
African Ancestry|
5,343 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Duration of walks — — R²: 0.00426 [0.0011, 0.00741]
Incremental R2 (full-covars): 0.0008
PGS R2 (no covariates): 0.00083 [-0.00057, 0.00222]		 age, sex, UKB array type, Genotype PCs —
PPM008124 PSS007482|
East Asian Ancestry|
1,441 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Duration of walks — — R²: 0.01101 [0.00118, 0.02084]
Incremental R2 (full-covars): 0.00099
PGS R2 (no covariates): 0.00149 [-0.00216, 0.00515]		 age, sex, UKB array type, Genotype PCs —
PPM008125 PSS007483|
European Ancestry|
22,129 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Duration of walks — — R²: 0.01036 [0.00786, 0.01287]
Incremental R2 (full-covars): 0.00144
PGS R2 (no covariates): 0.00174 [0.0007, 0.00277]		 age, sex, UKB array type, Genotype PCs —
PPM008126 PSS007484|
South Asian Ancestry|
6,613 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Duration of walks — — R²: 0.00724 [0.0035, 0.01099]
Incremental R2 (full-covars): 0.00071
PGS R2 (no covariates): 0.00148 [-0.00022, 0.00318]		 age, sex, UKB array type, Genotype PCs —
PPM008127 PSS007485|
European Ancestry|
58,299 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Duration of walks — — R²: 0.00463 [0.00361, 0.00565]
Incremental R2 (full-covars): 0.00051
PGS R2 (no covariates): 0.00069 [0.00029, 0.00109]		 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
PSS007484 — — 6,613 individuals — South Asian — UKB —
PSS007485 — — 58,299 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS007481 — — 5,343 individuals — African unspecified — UKB —
PSS007482 — — 1,441 individuals — East Asian — UKB —
PSS007483 — — 22,129 individuals — European non-white British ancestry UKB —