Polygenic Score (PGS) ID: PGS001107

Predicted Trait
Reported Trait UACR [> 30 mg/g]
Mapped Trait(s) urinary albumin to creatinine ratio (EFO_0007778)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/BIN30030510
Released in PGS Catalog: Oct. 21, 2021
Download Score FTP directory
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 GBE_BIN30030510
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,040
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
261,855 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 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
—
[
  • 11,394 cases
  • , 250,461 controls
]
 European UKB — — — white British ancestry —

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
PPM008274 PSS003691|
African Ancestry|
6,237 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: UACR > 30 mg/g — AUROC: 0.60139 [0.57512, 0.62766] R²: 0.02227
Incremental AUROC (full-covars): 0.00185
PGS R2 (no covariates): 0.0009
PGS AUROC (no covariates): 0.51848 [0.49256, 0.5444]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008275 PSS003692|
East Asian Ancestry|
1,644 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: UACR > 30 mg/g — AUROC: 0.6001 [0.54392, 0.65627] R²: 0.0208
Incremental AUROC (full-covars): 0.00975
PGS R2 (no covariates): 0.0014
PGS AUROC (no covariates): 0.52126 [0.46633, 0.57618]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008276 PSS003693|
European Ancestry|
24,116 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: UACR > 30 mg/g — AUROC: 0.60907 [0.59174, 0.6264] R²: 0.02214
Incremental AUROC (full-covars): 0.00893
PGS R2 (no covariates): 0.00475
PGS AUROC (no covariates): 0.55009 [0.53261, 0.56756]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008277 PSS003694|
South Asian Ancestry|
7,468 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: UACR > 30 mg/g — AUROC: 0.59327 [0.5705, 0.61603] R²: 0.01969
Incremental AUROC (full-covars): 0.00691
PGS R2 (no covariates): 0.00348
PGS AUROC (no covariates): 0.53695 [0.51465, 0.55924]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008278 PSS003695|
European Ancestry|
65,586 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: UACR > 30 mg/g — AUROC: 0.59969 [0.58899, 0.61039] R²: 0.01679
Incremental AUROC (full-covars): 0.00782
PGS R2 (no covariates): 0.00362
PGS AUROC (no covariates): 0.54388 [0.53304, 0.55472]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

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
PSS003691 — —
[
  • 479 cases
  • , 5,758 controls
]
 — African unspecified — UKB —
PSS003692 — —
[
  • 108 cases
  • , 1,536 controls
]
 — East Asian — UKB —
PSS003693 — —
[
  • 1,130 cases
  • , 22,986 controls
]
 — European non-white British ancestry UKB —
PSS003694 — —
[
  • 706 cases
  • , 6,762 controls
]
 — South Asian — UKB —
PSS003695 — —
[
  • 2,854 cases
  • , 62,732 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)