Polygenic Score (PGS) ID: PGS000690

Predicted Trait
Reported Trait Microalbumin in urine [mg/L]
Mapped Trait(s) urinary microalbumin measurement (EFO_0010967)
Released in PGS Catalog: Feb. 3, 2021
Download Score FTP directory
Terms and Licenses
Creative Commons Attribution 4.0 International (CC BY 4.0)

Score Details

Score Construction
PGS Name snpnet.Microalbumin_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 111
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
PPM001418 PSS000724|
African Ancestry|
2,679 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Microalbumin in urine [mg/L] — — R²: 0.02307
Spearman's ρ: 0.013		 Age, sex, PCs(1-40) —
PPM001453 PSS000725|
East Asian Ancestry|
323 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Microalbumin in urine [mg/L] — — R²: 0.00102
Spearman's ρ: 0.098		 Age, sex, PCs(1-40) —
PPM001488 PSS000726|
European Ancestry|
7,133 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Microalbumin in urine [mg/L] — — R²: 0.02086
Spearman's ρ: 0.023		 Age, sex, PCs(1-40) —
PPM001523 PSS000727|
South Asian Ancestry|
2,560 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Microalbumin in urine [mg/L] — — R²: 0.02677
Spearman's ρ: 0.053		 Age, sex, PCs(1-40) —
PPM001558 PSS000728|
European Ancestry|
19,352 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Microalbumin in urine [mg/L] — — R²: 0.02007
Spearman's ρ: 0.021		 Age, sex, PCs(1-40) —
PPM001594 PSS000834|
European Ancestry|
1,998 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Microalbumin in urine [mg/L] — — Spearman's ρ: 0.017 Age, sex —
PPM007375 PSS007046|
African Ancestry|
2,909 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Microalbumin in urine — — R²: 0.00508 [0.00163, 0.00852]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.0 [-0.00007, 0.00008]		 age, sex, UKB array type, Genotype PCs —
PPM007376 PSS007047|
East Asian Ancestry|
510 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Microalbumin in urine — — R²: 0.08744 [0.06187, 0.11301]
Incremental R2 (full-covars): 2e-05
PGS R2 (no covariates): 0.00542 [-0.00152, 0.01236]		 age, sex, UKB array type, Genotype PCs —
PPM007377 PSS007048|
European Ancestry|
7,647 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Microalbumin in urine — — R²: 0.00869 [0.00639, 0.01098]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00037 [-0.00011, 0.00085]		 age, sex, UKB array type, Genotype PCs —
PPM007378 PSS007049|
South Asian Ancestry|
2,749 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Microalbumin in urine — — R²: 0.00601 [0.0026, 0.00942]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00099 [-0.0004, 0.00238]		 age, sex, UKB array type, Genotype PCs —
PPM007379 PSS007050|
European Ancestry|
20,988 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Microalbumin in urine — — R²: 0.00188 [0.00123, 0.00254]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 6e-05 [-0.00006, 0.00018]		 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
PSS007046 — — 2,909 individuals — African unspecified — UKB —
PSS007047 — — 510 individuals — East Asian — UKB —
PSS007048 — — 7,647 individuals — European non-white British ancestry UKB —
PSS000724 — — 2,679 individuals — African unspecified — UKB —
PSS000725 — — 323 individuals — East Asian — UKB —
PSS000726 — — 7,133 individuals — European Non-British White UKB —
PSS000727 — — 2,560 individuals — South Asian — UKB —
PSS000728 — — 19,352 individuals — European
(British)		 — UKB —
PSS007049 — — 2,749 individuals — South Asian — UKB —
PSS007050 — — 20,988 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS000834 — — 1,998 individuals — European Participants self-identifying as white MESA —