Polygenic Score (PGS) ID: PGS002010

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-PLR_urate
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 75,102
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
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
391,124 individuals European UK (+ Ireland) UKB

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
PPM010954 PSS009495|
European Ancestry|
18,977 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Urate Partial Correlation (partial-r): 0.3885 [0.3763, 0.4005] sex, age, birth date, deprivation index, 16 PCs
PPM010955 PSS009269|
European Ancestry|
3,948 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Urate Partial Correlation (partial-r): 0.3794 [0.3523, 0.4058] sex, age, birth date, deprivation index, 16 PCs
PPM010956 PSS008823|
European Ancestry|
6,318 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Urate Partial Correlation (partial-r): 0.3878 [0.3666, 0.4086] sex, age, birth date, deprivation index, 16 PCs
PPM010957 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): 0.3602 [0.3077, 0.4104] sex, age, birth date, deprivation index, 16 PCs
PPM010958 PSS008375|
South Asian Ancestry|
5,991 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Urate Partial Correlation (partial-r): 0.3429 [0.3203, 0.3651] sex, age, birth date, deprivation index, 16 PCs
PPM010959 PSS008151|
East Asian Ancestry|
1,714 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Urate Partial Correlation (partial-r): 0.3222 [0.2788, 0.3642] sex, age, birth date, deprivation index, 16 PCs
PPM010960 PSS007939|
African Ancestry|
2,343 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Urate Partial Correlation (partial-r): 0.2409 [0.2022, 0.2789] sex, age, birth date, deprivation index, 16 PCs
PPM010961 PSS009043|
African Ancestry|
3,652 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Urate Partial Correlation (partial-r): 0.2438 [0.2129, 0.2741] 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
PSS008823 6,318 individuals European Italy (South Europe) UKB
PSS008375 5,991 individuals South Asian India (South Asia) UKB
PSS008151 1,714 individuals East Asian China (East Asia) UKB
PSS007939 2,343 individuals African American or Afro-Caribbean Carribean UKB