Polygenic Score (PGS) ID: PGS004059

Predicted Trait
Reported Trait eGFR
Mapped Trait(s) glomerular filtration rate (EFO_0005208)
Released in PGS Catalog: Dec. 19, 2023
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Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name megaprs.auto.GCST008059.eGFR
Development Method
Name megaprs.auto
Parameters Model:Model115,Type:bolt,Her_Scaling:1,Lasso_lambda:NA,Lasso_s:NA,Bolt_p:0.1,Bolt_f2:0.2,BayesR_p1:NA,BayesR_p2:NA,BayesR_p3:NA,BayesR_p4:NA
Variants
Original Genome Build GRCh38
Number of Variants 846,995
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: 100%
567,460 individuals (100%)
Score Development/Training
European: 100%
344,140 individuals (100%)
PGS Evaluation
European: 50%
South Asian: 50%
4 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST008059
Europe PMC: 31152163
 567,460 individuals European 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
— 344,140 individuals European 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
PPM019757 PSS011251|
South Asian Ancestry|
3,061 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: estimated glomerular filtration rate β: 0.22316 [0.21214072, 0.23418004] — R²: 0.0498 [0.04500368, 0.05484029] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM019759 PSS011266|
European Ancestry|
66,759 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: estimated glomerular filtration rate β: 0.22692 [0.21952877, 0.23430455] — R²: 0.05149 [0.04819288, 0.05489862] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM019761 PSS011293|
South Asian Ancestry|
8,855 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: estimated glomerular filtration rate β: 0.28361 [0.26363577, 0.30358644] — R²: 0.08044 [0.06950382, 0.09216473] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM019763 PSS011280|
European Ancestry|
86,034 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: estimated glomerular filtration rate β: 0.32293 [0.31659726, 0.32925313] — R²: 0.10417 [0.10012723, 0.10829233] 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
PSS011280 — — 86,034 individuals — European — UKB —
PSS011266 — — 66,759 individuals — European — HUNT —
PSS011251 — — 3,061 individuals — South Asian — G&H —
PSS011293 — — 8,855 individuals — South Asian — UKB —