Polygenic Score (PGS) ID: PGS000999

Predicted Trait
Reported Trait Comparative body size at age 10
Mapped Trait(s) comparative body size at age 10, self-reported (EFO_0009819)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1001687
Released in PGS Catalog: Oct. 21, 2021
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Score Details

Score Construction
PGS Name GBE_QT_FC1001687
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 13,034
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%
265,460 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
— 265,460 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
PPM007758 PSS007571|
African Ancestry|
5,987 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Comparative body size at age 10 — — R²: 0.00794 [0.00364, 0.01223]
Incremental R2 (full-covars): 5e-05
PGS R2 (no covariates): 0.00274 [0.0002, 0.00527]		 age, sex, UKB array type, Genotype PCs —
PPM007759 PSS007572|
East Asian Ancestry|
1,568 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Comparative body size at age 10 — — R²: 0.02263 [0.0087, 0.03657]
Incremental R2 (full-covars): 0.01234
PGS R2 (no covariates): 0.01384 [0.00284, 0.02483]		 age, sex, UKB array type, Genotype PCs —
PPM007760 PSS007573|
European Ancestry|
24,369 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Comparative body size at age 10 — — R²: 0.05659 [0.05101, 0.06216]
Incremental R2 (full-covars): 0.05131
PGS R2 (no covariates): 0.0515 [0.04615, 0.05684]		 age, sex, UKB array type, Genotype PCs —
PPM007761 PSS007574|
South Asian Ancestry|
7,142 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Comparative body size at age 10 — — Incremental R2 (full-covars): 0.01063
R²: 0.01573 [0.01026, 0.02119]
PGS R2 (no covariates): 0.01201 [0.00722, 0.0168]		 age, sex, UKB array type, Genotype PCs —
PPM007762 PSS007575|
European Ancestry|
66,372 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Comparative body size at age 10 — — R²: 0.06039 [0.05691, 0.06388]
Incremental R2 (full-covars): 0.05578
PGS R2 (no covariates): 0.05527 [0.05191, 0.05862]		 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
PSS007571 — — 5,987 individuals — African unspecified — UKB —
PSS007572 — — 1,568 individuals — East Asian — UKB —
PSS007573 — — 24,369 individuals — European non-white British ancestry UKB —
PSS007574 — — 7,142 individuals — South Asian — UKB —
PSS007575 — — 66,372 individuals — European white British ancestry UKB Testing cohort (heldout set)