Polygenic Score (PGS) ID: PGS002198

Predicted Trait
Reported Trait Urea
Mapped Trait(s) urea measurement (EFO_0011005)
Additional Trait Information biological measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_log_urea
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 820,118
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
PPM012431 PSS009468|
European Ancestry|
18,989 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urea — — Partial Correlation (partial-r): 0.2506 [0.2372, 0.2639] sex, age, birth date, deprivation index, 16 PCs —
PPM012432 PSS009242|
European Ancestry|
3,950 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urea — — Partial Correlation (partial-r): 0.2538 [0.2243, 0.2828] sex, age, birth date, deprivation index, 16 PCs —
PPM012433 PSS008796|
European Ancestry|
6,320 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urea — — Partial Correlation (partial-r): 0.2434 [0.2201, 0.2665] sex, age, birth date, deprivation index, 16 PCs —
PPM012434 PSS008570|
Greater Middle Eastern Ancestry|
1,124 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urea — — Partial Correlation (partial-r): 0.229 [0.1723, 0.2842] sex, age, birth date, deprivation index, 16 PCs —
PPM012436 PSS008125|
East Asian Ancestry|
1,715 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urea — — Partial Correlation (partial-r): 0.1944 [0.1482, 0.2398] sex, age, birth date, deprivation index, 16 PCs —
PPM012437 PSS007912|
African Ancestry|
2,345 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urea — — Partial Correlation (partial-r): 0.1588 [0.1189, 0.1982] sex, age, birth date, deprivation index, 16 PCs —
PPM012438 PSS009016|
African Ancestry|
3,655 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urea — — Partial Correlation (partial-r): 0.0872 [0.0548, 0.1194] sex, age, birth date, deprivation index, 16 PCs —
PPM012435 PSS008348|
South Asian Ancestry|
6,003 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Urea — — Partial Correlation (partial-r): 0.2054 [0.181, 0.2296] 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
PSS007912 — — 2,345 individuals — African American or Afro-Caribbean Carribean UKB —
PSS008796 — — 6,320 individuals — European Italy (South Europe) UKB —
PSS009016 — — 3,655 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008570 — — 1,124 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009242 — — 3,950 individuals — European Poland (NE Europe) UKB —
PSS009468 — — 18,989 individuals — European UK (+ Ireland) UKB —
PSS008125 — — 1,715 individuals — East Asian China (East Asia) UKB —
PSS008348 — — 6,003 individuals — South Asian India (South Asia) UKB —