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 |
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 |
Study Identifiers
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Sample Numbers
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Sample Ancestry
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Cohort(s)
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Phenotype Definitions & Methods
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Age of Study Participants
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Participant Follow-up Time
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Additional Ancestry Description
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Additional Sample/Cohort Information
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— | 93,002 individuals | European | UKB | — | — | — | white British ancestry | Training + validation cohort (train_val) |
PGS Performance Metric ID (PPM) |
PGS Sample Set ID (PSS) |
Performance Source
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Trait
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PGS Effect Sizes (per SD change) |
Classification Metrics
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Other Metrics
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Covariates Included in the Model
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PGS Performance: Other Relevant Information |
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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 | — |
PGS Sample Set ID (PSS) |
Phenotype Definitions and Methods
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Participant Follow-up Time
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Sample Numbers
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Age of Study Participants
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Sample Ancestry
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Additional Ancestry Description
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Cohort(s)
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Additional Sample/Cohort Information
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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) |