Polygenic Score (PGS) ID: PGS002030

Predicted Trait
Reported Trait Gout
Mapped Trait(s) gout (EFO_0004274)
Additional Trait Information endocrine/metabolic
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_274.1
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 163,210
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
PPM011116 PSS008620|
European Ancestry|
6,655 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Gout — — Partial Correlation (partial-r): 0.0476 [0.0236, 0.0716] sex, age, birth date, deprivation index, 16 PCs —
PPM011114 PSS009292|
European Ancestry|
19,983 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Gout — — Partial Correlation (partial-r): 0.0415 [0.0277, 0.0554] sex, age, birth date, deprivation index, 16 PCs —
PPM011115 PSS009066|
European Ancestry|
4,135 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Gout — — Partial Correlation (partial-r): 0.047 [0.0165, 0.0775] sex, age, birth date, deprivation index, 16 PCs —
PPM011117 PSS008396|
Greater Middle Eastern Ancestry|
1,200 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Gout — — Partial Correlation (partial-r): -0.0053 [-0.0623, 0.0518] sex, age, birth date, deprivation index, 16 PCs —
PPM011118 PSS008174|
South Asian Ancestry|
6,325 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Gout — — Partial Correlation (partial-r): 0.0231 [-0.0015, 0.0478] sex, age, birth date, deprivation index, 16 PCs —
PPM011119 PSS007961|
East Asian Ancestry|
1,810 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Gout — — Partial Correlation (partial-r): 0.0262 [-0.0201, 0.0725] sex, age, birth date, deprivation index, 16 PCs —
PPM011120 PSS007742|
African Ancestry|
2,480 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Gout — — Partial Correlation (partial-r): 0.0336 [-0.006, 0.073] sex, age, birth date, deprivation index, 16 PCs —
PPM011121 PSS008845|
African Ancestry|
3,918 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Gout — — Partial Correlation (partial-r): 0.0254 [-0.006, 0.0568] 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
PSS009066 — — 4,135 individuals — European Poland (NE Europe) UKB —
PSS008620 — — 6,655 individuals — European Italy (South Europe) UKB —
PSS008396 — — 1,200 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS008174 — — 6,325 individuals — South Asian India (South Asia) UKB —
PSS009292 — — 19,983 individuals — European UK (+ Ireland) UKB —
PSS008845 — — 3,918 individuals — African unspecified Nigeria (West Africa) UKB —
PSS007961 — — 1,810 individuals — East Asian China (East Asia) UKB —
PSS007742 — — 2,480 individuals — African American or Afro-Caribbean Carribean UKB —