Polygenic Score (PGS) ID: PGS001379

Predicted Trait
Reported Trait Body surface area
Mapped Trait(s) anthropometric measurement (EFO_0004302)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI22427
Released in PGS Catalog: Nov. 25, 2021
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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_INI22427
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 850
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%
22,235 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
— 22,235 individuals European UKB — — — white British ancestry Training + validation cohort (train_val)

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
PPM005330 PSS005001|
African Ancestry|
192 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Body surface area — — R²: 0.33045 [0.31174, 0.34916]
Incremental R2 (full-covars): 0.00602
PGS R2 (no covariates): 0.00907 [0.00448, 0.01366]		 age, sex, UKB array type, Genotype PCs —
PPM005331 PSS005002|
East Asian Ancestry|
110 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Body surface area — — R²: 0.51766 [0.48477, 0.55055]
Incremental R2 (full-covars): 0.0075
PGS R2 (no covariates): 0.00447 [-0.00184, 0.01077]		 age, sex, UKB array type, Genotype PCs —
PPM005332 PSS005003|
European Ancestry|
1,708 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Body surface area — — R²: 0.45345 [0.44431, 0.46259]
Incremental R2 (full-covars): 0.01083
PGS R2 (no covariates): 0.01017 [0.00769, 0.01264]		 age, sex, UKB array type, Genotype PCs —
PPM005333 PSS005004|
South Asian Ancestry|
319 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Body surface area — — R²: 0.39431 [0.37747, 0.41115]
Incremental R2 (full-covars): 0.00066
PGS R2 (no covariates): 0.00119 [-0.00034, 0.00272]		 age, sex, UKB array type, Genotype PCs —
PPM005334 PSS005005|
European Ancestry|
5,526 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Body surface area — — R²: 0.45482 [0.44927, 0.46037]
Incremental R2 (full-covars): 0.01393
PGS R2 (no covariates): 0.02007 [0.01798, 0.02217]		 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
PSS005001 — — 192 individuals — African unspecified — UKB —
PSS005002 — — 110 individuals — East Asian — UKB —
PSS005003 — — 1,708 individuals — European non-white British ancestry UKB —
PSS005004 — — 319 individuals — South Asian — UKB —
PSS005005 — — 5,526 individuals — European white British ancestry UKB Testing cohort (heldout set)