Polygenic Score (PGS) ID: PGS004061

Predicted Trait
Reported Trait Urate
Mapped Trait(s) urate measurement (EFO_0004531)
Released in PGS Catalog: Dec. 19, 2023
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Score Details

Score Construction
PGS Name megaprs.auto.GCST008972.Urate
Development Method
Name megaprs.auto
Parameters Model:Model176,Type:bayesr,Her_Scaling:1,Lasso_lambda:NA,Lasso_s:NA,Bolt_p:NA,Bolt_f2:NA,BayesR_p1:0.75,BayesR_p2:0.2,BayesR_p3:0.05,BayesR_p4:0
Variants
Original Genome Build GRCh38
Number of Variants 677,631
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000517
Citation (link to publication) Monti R et al. Am J Hum Genet (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 63.1%
East Asian: 27.5%
African: 7.4%
South Asian: 2%
Hispanic or Latin American: 0.1%
457,690 individuals (100%)
Score Development/Training
European: 100%
343,904 individuals (100%)
PGS Evaluation
European: 66.7%
South Asian: 33.3%
3 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST008972
Europe PMC: 31578528
 288,649 individuals European NR
GWAS Catalog: GCST008972
Europe PMC: 31578528
 125,725 individuals East Asian NR
GWAS Catalog: GCST008972
Europe PMC: 31578528
 33,671 individuals African American or Afro-Caribbean NR
GWAS Catalog: GCST008972
Europe PMC: 31578528
 9,037 individuals South Asian NR
GWAS Catalog: GCST008972
Europe PMC: 31578528
 608 individuals Hispanic or Latin American NR
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
— 343,904 individuals European UKB data field 30880 — — — —

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
PPM019882 PSS011250|
European Ancestry|
4,730 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: Urate β: 0.24798 [0.22036647, 0.27559428] — R²: 0.06149 [0.04856138, 0.07595221] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM019885 PSS011292|
South Asian Ancestry|
8,842 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: Urate β: 0.24495 [0.22474148, 0.26516327] — R²: 0.06 [0.05050873, 0.07031156] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM019887 PSS011279|
European Ancestry|
85,973 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: Urate β: 0.26687 [0.26044724, 0.27328703] — R²: 0.07168 [0.06826961, 0.07516678] 0 beta = sd_trait/sd_pgs = pearson correlation

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
PSS011279 — — 85,973 individuals — European — UKB —
PSS011250 — — 4,730 individuals — European — G&H —
PSS011292 — — 8,842 individuals — South Asian — UKB —