Polygenic Score (PGS) ID: PGS001242

Predicted Trait
Reported Trait Ankle spacing width (L)
Mapped Trait(s) anthropometric measurement (EFO_0004302)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI4100
Released in PGS Catalog: Oct. 21, 2021
Download Score FTP directory
Terms and Licenses
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_INI4100
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 13,416
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%
103,475 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
— 103,475 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
PPM008719 PSS007271|
African Ancestry|
3,560 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ankle spacing width (L) — — R²: 0.17615 [0.15934, 0.19296]
Incremental R2 (full-covars): 0.00354
PGS R2 (no covariates): 0.01739 [0.01109, 0.02368]		 age, sex, UKB array type, Genotype PCs —
PPM008720 PSS007272|
East Asian Ancestry|
781 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ankle spacing width (L) — — R²: 0.37494 [0.33867, 0.41122]
Incremental R2 (full-covars): 0.0398
PGS R2 (no covariates): 0.05591 [0.03475, 0.07706]		 age, sex, UKB array type, Genotype PCs —
PPM008721 PSS007273|
European Ancestry|
10,636 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ankle spacing width (L) — — R²: 0.38151 [0.37202, 0.391]
Incremental R2 (full-covars): 0.07548
PGS R2 (no covariates): 0.07696 [0.0706, 0.08332]		 age, sex, UKB array type, Genotype PCs —
PPM008722 PSS007274|
South Asian Ancestry|
5,043 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ankle spacing width (L) — — R²: 0.33251 [0.31547, 0.34955]
Incremental R2 (full-covars): 0.06787
PGS R2 (no covariates): 0.06574 [0.05514, 0.07635]		 age, sex, UKB array type, Genotype PCs —
PPM008723 PSS007275|
European Ancestry|
25,716 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Ankle spacing width (L) — — R²: 0.34469 [0.33888, 0.3505]
Incremental R2 (full-covars): 0.08959
PGS R2 (no covariates): 0.09278 [0.08861, 0.09695]		 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
PSS007271 — — 3,560 individuals — African unspecified — UKB —
PSS007272 — — 781 individuals — East Asian — UKB —
PSS007273 — — 10,636 individuals — European non-white British ancestry UKB —
PSS007274 — — 5,043 individuals — South Asian — UKB —
PSS007275 — — 25,716 individuals — European white British ancestry UKB Testing cohort (heldout set)