Polygenic Score (PGS) ID: PGS005282

Predicted Trait
Reported Trait IgA nephropathy
Mapped Trait(s) IGA glomerulonephritis (EFO_0004194)
Released in PGS Catalog: Aug. 6, 2025
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Score Details

Score Construction
PGS Name GRS15_nephropathy
Development Method
Name Genome-wide significant SNPs
Parameters p<5.0E−08,r2 < 0.5
Variants
Original Genome Build NR
Number of Variants 15
Effect Weight Type log(OR)
PGS Source
PGS Catalog Publication (PGP) ID PGP000756
Citation (link to publication) Xu L et al. Phenomics (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
East Asian: 53.6%
European: 46.4%
67,587 individuals (100%)
PGS Evaluation
East Asian: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST001009
Europe PMC: 21399633
 2,096 individuals East Asian NR
GWAS Catalog: GCST001364
Europe PMC: 22197929
 5,704 individuals East Asian NR
GWAS Catalog: GCST002655
Europe PMC: 25305756
 2,096 individuals East Asian NR
GWAS Catalog: GCST002655
Europe PMC: 25305756
 4,603 individuals European NR
GWAS Catalog: GCST011781
Europe PMC: 32912934
 14,191 individuals East Asian NR
GWAS Catalog: GCST90308722
Europe PMC: 37337107
 26,734 individuals European NR
GWAS Catalog: GCST90308722
Europe PMC: 37337107
 12,163 individuals East Asian NR

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
PPM022989 PSS012087|
East Asian Ancestry|
12,207 individuals
 PGP000756 |
Xu L et al. Phenomics (2024)
 Reported Trait: IgA nephropathy OR: 1.36 [1.3, 1.42] AUROC: 0.59 — — —

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
PSS012087 — —
[
  • 3,365 cases
  • , 8,842 controls
]
 — East Asian
(Chinese)		 — NR PKU-IgAN Cohort