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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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_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
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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 individualsEuropeanUKBwhite British ancestryTraining + validation cohort (train_val)
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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.

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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
PPM005280PSS004941|
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: 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
PPM005281PSS004942|
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: 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
PPM005282PSS004943|
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: 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
PPM005283PSS004944|
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: 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
PPM005284PSS004945|
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: 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
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Evaluated Samples

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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
PSS004941951 individualsAfrican unspecifiedUKB
PSS004942377 individualsEast AsianUKB
PSS0049438,655 individualsEuropeannon-white British ancestryUKB
PSS0049441,142 individualsSouth AsianUKB
PSS00494523,185 individualsEuropeanwhite British ancestryUKBTesting cohort (heldout set)
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