Polygenic Score (PGS) ID: PGS004075

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.CV.GCST008059.eGFR
Development Method
Name megaprs.CV
Parameters Model:Model174,Type:bayesr,Her_Scaling:1,Lasso_lambda:NA,Lasso_s:NA,Bolt_p:NA,Bolt_f2:NA,BayesR_p1:0.9,BayesR_p2:0.05,BayesR_p3:0.05,BayesR_p4:0
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 M R et al. medRxiv (2023) Preprint
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
PPM019767 PSS011251|
South Asian Ancestry|
3,061 individuals
 PGP000517 |
Monti M R et al. medRxiv (2023)
|Pre		 Reported Trait: estimated glomerular filtration rate β: 0.22663 — — 0 beta = sd_trait/sd_pgs = pearson correlation
PPM019769 PSS011266|
European Ancestry|
66,759 individuals
 PGP000517 |
Monti M R et al. medRxiv (2023)
|Pre		 Reported Trait: estimated glomerular filtration rate β: 0.22823 — — 0 beta = sd_trait/sd_pgs = pearson correlation
PPM019771 PSS011293|
South Asian Ancestry|
8,855 individuals
 PGP000517 |
Monti M R et al. medRxiv (2023)
|Pre		 Reported Trait: estimated glomerular filtration rate β: 0.28276 — — 0 beta = sd_trait/sd_pgs = pearson correlation
PPM019773 PSS011280|
European Ancestry|
86,034 individuals
 PGP000517 |
Monti M R et al. medRxiv (2023)
|Pre		 Reported Trait: estimated glomerular filtration rate β: 0.32666 — — 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 —