| Predicted Trait | |
| Reported Trait | WA L2 in tract acoustic radiation (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25597 |
| Score Construction | |
| PGS Name | GBE_INI25597 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 993 |
| 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
|
Sample Numbers
|
Sample Ancestry
|
Cohort(s)
|
Phenotype Definitions & Methods
|
Age of Study Participants
|
Participant Follow-up Time
|
Additional Ancestry Description
|
Additional Sample/Cohort Information
|
|---|---|---|---|---|---|---|---|---|
| — | 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
|
Trait
|
PGS Effect Sizes (per SD change) |
Classification Metrics
|
Other Metrics
|
Covariates Included in the Model
|
PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|
| PPM006205 | PSS006041| African Ancestry| 182 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L2 in tract acoustic radiation (R) | — | — | R²: 0.05756 [0.04657, 0.06855] Incremental R2 (full-covars): -0.01728 PGS R2 (no covariates): 0.00292 [0.0003, 0.00554] | age, sex, UKB array type, Genotype PCs | — |
| PPM006206 | PSS006042| East Asian Ancestry| 106 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L2 in tract acoustic radiation (R) | — | — | R²: 0.07354 [0.04973, 0.09735] Incremental R2 (full-covars): 0.01667 PGS R2 (no covariates): 0.01811 [0.00559, 0.03064] | age, sex, UKB array type, Genotype PCs | — |
| PPM006207 | PSS006043| European Ancestry| 1,651 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L2 in tract acoustic radiation (R) | — | — | R²: 0.03833 [0.03365, 0.04301] Incremental R2 (full-covars): -0.0056 PGS R2 (no covariates): 0.00138 [0.00046, 0.0023] | age, sex, UKB array type, Genotype PCs | — |
| PPM006208 | PSS006044| South Asian Ancestry| 299 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L2 in tract acoustic radiation (R) | — | — | R²: 0.0311 [0.02354, 0.03867] Incremental R2 (full-covars): -0.00023 PGS R2 (no covariates): 0.00161 [-0.00017, 0.00338] | age, sex, UKB array type, Genotype PCs | — |
| PPM006209 | PSS006045| European Ancestry| 5,120 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L2 in tract acoustic radiation (R) | — | — | R²: 0.03405 [0.03136, 0.03674] Incremental R2 (full-covars): 0.00148 PGS R2 (no covariates): 0.00452 [0.00351, 0.00553] | 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
|
|---|---|---|---|---|---|---|---|---|
| PSS006041 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS006042 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS006043 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS006044 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS006045 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |