Polygenic Score (PGS) ID: PGS001075

Predicted Trait
Reported Trait Usual walking pace
Mapped Trait(s) physical activity measurement (EFO_0008002)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI924
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_INI924
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 7,535
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%
268,260 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
— 268,260 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
PPM008133 PSS007491|
African Ancestry|
6,309 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Usual walking pace — — R²: 0.02106 [0.01415, 0.02796]
Incremental R2 (full-covars): -0.00129
PGS R2 (no covariates): 0.00166 [-0.00032, 0.00363]		 age, sex, UKB array type, Genotype PCs —
PPM008134 PSS007492|
East Asian Ancestry|
1,628 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Usual walking pace — — R²: 0.01729 [0.00505, 0.02954]
Incremental R2 (full-covars): -0.00194
PGS R2 (no covariates): 0.00179 [-0.00221, 0.00578]		 age, sex, UKB array type, Genotype PCs —
PPM008135 PSS007493|
European Ancestry|
24,676 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Usual walking pace — — R²: 0.04293 [0.038, 0.04785]
Incremental R2 (full-covars): 0.00907
PGS R2 (no covariates): 0.01048 [0.00796, 0.01299]		 age, sex, UKB array type, Genotype PCs —
PPM008136 PSS007494|
South Asian Ancestry|
7,430 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Usual walking pace — — Incremental R2 (full-covars): 0.00199
R²: 0.02131 [0.01498, 0.02763]
PGS R2 (no covariates): 0.00337 [0.00081, 0.00594]		 age, sex, UKB array type, Genotype PCs —
PPM008137 PSS007495|
European Ancestry|
67,077 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Usual walking pace — — R²: 0.04297 [0.03998, 0.04597]
Incremental R2 (full-covars): 0.01231
PGS R2 (no covariates): 0.01271 [0.01103, 0.01439]		 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
PSS007491 — — 6,309 individuals — African unspecified — UKB —
PSS007492 — — 1,628 individuals — East Asian — UKB —
PSS007493 — — 24,676 individuals — European non-white British ancestry UKB —
PSS007494 — — 7,430 individuals — South Asian — UKB —
PSS007495 — — 67,077 individuals — European white British ancestry UKB Testing cohort (heldout set)