Polygenic Score (PGS) ID: PGS000693

Predicted Trait
Reported Trait Potassium in urine [mmol/L]
Mapped Trait(s) urinary potassium measurement (EFO_0010952)
Released in PGS Catalog: Feb. 3, 2021
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Terms and Licenses
Creative Commons Attribution 4.0 International (CC BY 4.0)

Score Details

Score Construction
PGS Name snpnet.Potassium_in_urine
Development Method
Name snpnet
Parameters 1,080,968 variants as input (directly genotyped variants, imputed HLA allelotypes, and CNVs)
Variants
Original Genome Build hg19
Number of Variants 2,423
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000128
Citation (link to publication) Sinnott-Armstrong N et al. Nat Genet (2021)
Ancestry Distribution
Score Development/Training
European: 100%
255,256 individuals (100%)
PGS Evaluation
European: 45.5%
African: 18.2%
East Asian: 18.2%
South Asian: 18.2%
11 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
223,327 individuals European
(British)		 UKB — — — — Training
31,929 individuals European
(British)		 UKB — — — — Validation

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
PPM001421 PSS000739|
African Ancestry|
5,786 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Potassium in urine [mmol/L] — — R²: 0.03001
Spearman's ρ: 0.011		 Age, sex, PCs(1-40) —
PPM001456 PSS000740|
East Asian Ancestry|
1,045 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Potassium in urine [mmol/L] — — R²: 0.01859
Spearman's ρ: 0.038		 Age, sex, PCs(1-40) —
PPM001491 PSS000741|
European Ancestry|
22,839 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Potassium in urine [mmol/L] — — R²: 0.04847
Spearman's ρ: 0.036		 Age, sex, PCs(1-40) —
PPM001589 PSS000835|
European Ancestry|
2,117 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Potassium in urine [mmol/L] — — Spearman's ρ: 0.065 Age, sex —
PPM001526 PSS000742|
South Asian Ancestry|
6,998 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Potassium in urine [mmol/L] — — R²: 0.06035
Spearman's ρ: 0.027		 Age, sex, PCs(1-40) —
PPM001561 PSS000743|
European Ancestry|
62,013 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Potassium in urine [mmol/L] — — R²: 0.04727
Spearman's ρ: 0.042		 Age, sex, PCs(1-40) —
PPM007390 PSS007056|
African Ancestry|
6,238 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Potassium in urine — — R²: 0.01656 [0.01041, 0.02271]
Incremental R2 (full-covars): 1e-05
PGS R2 (no covariates): 0.0 [-0.00009, 0.0001]		 age, sex, UKB array type, Genotype PCs —
PPM007391 PSS007057|
East Asian Ancestry|
1,642 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Potassium in urine — — R²: 0.02067 [0.00733, 0.03401]
Incremental R2 (full-covars): 6e-05
PGS R2 (no covariates): 0.00061 [-0.00173, 0.00295]		 age, sex, UKB array type, Genotype PCs —
PPM007392 PSS007058|
European Ancestry|
24,108 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Potassium in urine — — R²: 0.02543 [0.02157, 0.02928]
Incremental R2 (full-covars): 6e-05
PGS R2 (no covariates): 0.00097 [0.0002, 0.00175]		 age, sex, UKB array type, Genotype PCs —
PPM007393 PSS007059|
South Asian Ancestry|
7,464 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Potassium in urine — — R²: 0.03366 [0.02581, 0.04151]
Incremental R2 (full-covars): 6e-05
PGS R2 (no covariates): 0.00101 [-0.00039, 0.00242]		 age, sex, UKB array type, Genotype PCs —
PPM007394 PSS007060|
European Ancestry|
65,536 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Potassium in urine — — R²: 0.02071 [0.01858, 0.02283]
Incremental R2 (full-covars): 7e-05
PGS R2 (no covariates): 0.00149 [0.0009, 0.00207]		 age, sex, UKB array type, Genotype 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
PSS000743 — — 62,013 individuals — European
(British)		 — UKB —
PSS000741 — — 22,839 individuals — European Non-British White UKB —
PSS007056 — — 6,238 individuals — African unspecified — UKB —
PSS007057 — — 1,642 individuals — East Asian — UKB —
PSS007058 — — 24,108 individuals — European non-white British ancestry UKB —
PSS007059 — — 7,464 individuals — South Asian — UKB —
PSS007060 — — 65,536 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS000835 — — 2,117 individuals — European Participants self-identifying as white MESA —
PSS000740 — — 1,045 individuals — East Asian — UKB —
PSS000739 — — 5,786 individuals — African unspecified — UKB —
PSS000742 — — 6,998 individuals — South Asian — UKB —