| Predicted Trait | |
| Reported Trait | WA L3 in tract acoustic radiation (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25624 |
| Score Construction | |
| PGS Name | GBE_INI25624 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 794 |
| 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% 21,081 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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|---|---|---|---|---|---|---|---|---|
| — | 21,081 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
|
PGS Effect Sizes (per SD change) |
Classification Metrics
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Other Metrics
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Covariates Included in the Model
|
PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|
| PPM006280 | PSS006116| African Ancestry| 182 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract acoustic radiation (R) | — | — | R²: 0.08493 [0.07197, 0.0979] Incremental R2 (full-covars): -0.00119 PGS R2 (no covariates): 0.00129 [-0.00045, 0.00303] | age, sex, UKB array type, Genotype PCs | — |
| PPM006281 | PSS006117| East Asian Ancestry| 106 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract acoustic radiation (R) | — | — | R²: 0.05678 [0.03548, 0.07808] Incremental R2 (full-covars): 0.01 PGS R2 (no covariates): 0.01699 [0.00485, 0.02914] | age, sex, UKB array type, Genotype PCs | — |
| PPM006282 | PSS006118| European Ancestry| 1,651 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract acoustic radiation (R) | — | — | R²: 0.05405 [0.04859, 0.05951] Incremental R2 (full-covars): 0.00134 PGS R2 (no covariates): 0.00418 [0.00258, 0.00578] | age, sex, UKB array type, Genotype PCs | — |
| PPM006283 | PSS006119| South Asian Ancestry| 299 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract acoustic radiation (R) | — | — | R²: 0.02359 [0.01695, 0.03023] Incremental R2 (full-covars): -0.00353 PGS R2 (no covariates): 0.00012 [-0.00036, 0.0006] | age, sex, UKB array type, Genotype PCs | — |
| PPM006284 | PSS006120| European Ancestry| 5,120 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract acoustic radiation (R) | — | — | R²: 0.04358 [0.04057, 0.0466] Incremental R2 (full-covars): 0.00294 PGS R2 (no covariates): 0.00483 [0.00378, 0.00587] | age, sex, UKB array type, Genotype PCs | — |
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
|
|---|---|---|---|---|---|---|---|---|
| PSS006116 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS006117 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS006118 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS006119 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS006120 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |