Polygenic Score (PGS) ID: PGS019473

Predicted Trait
Reported Trait Urinary calculus
Mapped Trait(s) urinary volume (OBA_0000173)
Released in PGS Catalog: July 29, 2026
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Score Details

Score Construction
PGS Name TPMI_594_Lassosum2
Development Method
Name Lassosum2
Parameters NR
Variants
Original Genome Build GRCh38
Number of Variants 2,608
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000835
Citation (link to publication) Chen HH et al. Nature (2025)
Ancestry Distribution
Source of Variant
Associations (GWAS)
East Asian: 100%
329,779 individuals (100%)
Score Development/Training
East Asian: 100%
75,520 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)
—
[
  • 9,462 cases
  • , 320,317 controls
]
,
43.97 % Male samples
 East Asian
(Han Chinese)		 TPMI
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
—
[
  • 3,183 cases
  • , 72,337 controls
]
,
45.27 % Male samples
 East Asian
(Han Chinese)		 TPMI 592.0,N20.0, N20.2 — — — —

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
PPM037655 PSS013388|
East Asian Ancestry|
19,500 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Urinary calculus — AUROC: 0.67804 R²: 0.13871 sex, age, array, PCs 1-10 —

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
PSS013388 592, 594, 788.0, V13.01,N20, N21, N22, N23, Z87.442 —
[
  • 1,423 cases
  • , 18,077 controls
]
,
45.93 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —