Polygenic Score (PGS) ID: PGS001387

Predicted Trait
Reported Trait Degree bothered by urinary frequency/bladder irritability in the last 3 months
Mapped Trait(s) health-related quality of life measurement (EFO_0011014)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI21058
Released in PGS Catalog: Nov. 25, 2021
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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_INI21058
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 333
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%
93,002 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
— 93,002 individuals European UKB — — — white British ancestry Training + validation cohort (train_val)

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
PPM005280 PSS004941|
African Ancestry|
951 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Degree bothered by urinary frequency/bladder irritability in the last 3 months — — R²: 0.02241 [0.01511, 0.02971]
Incremental R2 (full-covars): 0.00284
PGS R2 (no covariates): 0.00528 [0.00167, 0.00889]		 age, sex, UKB array type, Genotype PCs —
PPM005281 PSS004942|
East Asian Ancestry|
377 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Degree bothered by urinary frequency/bladder irritability in the last 3 months — — R²: 0.04327 [0.02393, 0.06261]
Incremental R2 (full-covars): -0.00355
PGS R2 (no covariates): 0.00165 [-0.00229, 0.00559]		 age, sex, UKB array type, Genotype PCs —
PPM005282 PSS004943|
European Ancestry|
8,655 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Degree bothered by urinary frequency/bladder irritability in the last 3 months — — R²: 0.02076 [0.01716, 0.02436]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00039 [-0.00011, 0.0009]		 age, sex, UKB array type, Genotype PCs —
PPM005283 PSS004944|
South Asian Ancestry|
1,142 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Degree bothered by urinary frequency/bladder irritability in the last 3 months — — R²: 0.02546 [0.0184, 0.03253]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00012 [-0.00038, 0.00061]		 age, sex, UKB array type, Genotype PCs —
PPM005284 PSS004945|
European Ancestry|
23,185 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Degree bothered by urinary frequency/bladder irritability in the last 3 months — — R²: 0.01566 [0.01375, 0.01757]
Incremental R2 (full-covars): 0.00087
PGS R2 (no covariates): 0.00093 [0.00046, 0.0014]		 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
PSS004941 — — 951 individuals — African unspecified — UKB —
PSS004942 — — 377 individuals — East Asian — UKB —
PSS004943 — — 8,655 individuals — European non-white British ancestry UKB —
PSS004944 — — 1,142 individuals — South Asian — UKB —
PSS004945 — — 23,185 individuals — European white British ancestry UKB Testing cohort (heldout set)