Polygenic Score (PGS) ID: PGS002229

Predicted Trait
Reported Trait Urate
Mapped Trait(s) urate measurement (EFO_0004531)
Additional Trait Information biological measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_urate
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 698,001
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000263
Citation (link to publication) Privé F et al. Am J Hum Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 37.5%
African: 25%
East Asian: 12.5%
Greater Middle Eastern: 12.5%
South Asian: 12.5%
8 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
— 391,124 individuals European UKB — — — UK (+ Ireland) —

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
PPM012683 PSS008151|
East Asian Ancestry|
1,714 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urate — — Partial Correlation (partial-r): 0.3108 [0.2672, 0.3532] sex, age, birth date, deprivation index, 16 PCs —
PPM012678 PSS009495|
European Ancestry|
18,977 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urate — — Partial Correlation (partial-r): 0.3761 [0.3638, 0.3882] sex, age, birth date, deprivation index, 16 PCs —
PPM012679 PSS009269|
European Ancestry|
3,948 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urate — — Partial Correlation (partial-r): 0.3765 [0.3494, 0.4031] sex, age, birth date, deprivation index, 16 PCs —
PPM012680 PSS008823|
European Ancestry|
6,318 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urate — — Partial Correlation (partial-r): 0.3837 [0.3624, 0.4045] sex, age, birth date, deprivation index, 16 PCs —
PPM012681 PSS008597|
Greater Middle Eastern Ancestry|
1,124 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urate — — Partial Correlation (partial-r): 0.3571 [0.3046, 0.4075] sex, age, birth date, deprivation index, 16 PCs —
PPM012682 PSS008375|
South Asian Ancestry|
5,991 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urate — — Partial Correlation (partial-r): 0.3348 [0.3121, 0.3571] sex, age, birth date, deprivation index, 16 PCs —
PPM012685 PSS009043|
African Ancestry|
3,652 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urate — — Partial Correlation (partial-r): 0.2404 [0.2096, 0.2708] sex, age, birth date, deprivation index, 16 PCs —
PPM012684 PSS007939|
African Ancestry|
2,343 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urate — — Partial Correlation (partial-r): 0.2311 [0.1923, 0.2693] sex, age, birth date, deprivation index, 16 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
PSS009043 — — 3,652 individuals — African unspecified Nigeria (West Africa) UKB —
PSS009269 — — 3,948 individuals — European Poland (NE Europe) UKB —
PSS008597 — — 1,124 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009495 — — 18,977 individuals — European UK (+ Ireland) UKB —
PSS008151 — — 1,714 individuals — East Asian China (East Asia) UKB —
PSS008823 — — 6,318 individuals — European Italy (South Europe) UKB —
PSS008375 — — 5,991 individuals — South Asian India (South Asia) UKB —
PSS007939 — — 2,343 individuals — African American or Afro-Caribbean Carribean UKB —