Polygenic Score (PGS) ID: PGS000969

Predicted Trait
Reported Trait Sitting height
Mapped Trait(s) sitting height measurement (EFO_0011011)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI20015
Released in PGS Catalog: Oct. 21, 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_INI20015
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 36,345
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%
269,143 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
— 269,143 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
PPM007665 PSS004888|
European Ancestry|
24,825 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Sitting height — — R²: 0.55998 [0.5518, 0.56815]
Incremental R2 (full-covars): 0.12693
PGS R2 (no covariates): 0.13335 [0.12549, 0.14121]		 age, sex, UKB array type, Genotype PCs —
PPM007666 PSS004889|
South Asian Ancestry|
7,645 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Sitting height — — R²: 0.52117 [0.50586, 0.53647]
Incremental R2 (full-covars): 0.06153
PGS R2 (no covariates): 0.07384 [0.0627, 0.08499]		 age, sex, UKB array type, Genotype PCs —
PPM007667 PSS004890|
European Ancestry|
67,301 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Sitting height — — R²: 0.56224 [0.55729, 0.5672]
Incremental R2 (full-covars): 0.12957
PGS R2 (no covariates): 0.1276 [0.1229, 0.1323]		 age, sex, UKB array type, Genotype PCs —
PPM007663 PSS004886|
African Ancestry|
6,403 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Sitting height — — R²: 0.3682 [0.34957, 0.38684]
Incremental R2 (full-covars): 0.01039
PGS R2 (no covariates): 0.02603 [0.01839, 0.03367]		 age, sex, UKB array type, Genotype PCs —
PPM007664 PSS004887|
East Asian Ancestry|
1,698 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Sitting height — — R²: 0.49052 [0.45671, 0.52434]
Incremental R2 (full-covars): 0.04748
PGS R2 (no covariates): 0.07798 [0.05358, 0.10237]		 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
PSS004886 — — 6,403 individuals — African unspecified — UKB —
PSS004887 — — 1,698 individuals — East Asian — UKB —
PSS004888 — — 24,825 individuals — European non-white British ancestry UKB —
PSS004889 — — 7,645 individuals — South Asian — UKB —
PSS004890 — — 67,301 individuals — European white British ancestry UKB Testing cohort (heldout set)