| Predicted Trait | |
| Reported Trait | WA FA in tract inferior fronto-occipital fasciculus (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25500 |
| Score Construction | |
| PGS Name | GBE_INI25500 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 597 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM006000 | PSS005836| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA FA in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.07105 [0.05902, 0.08309] Incremental R2 (full-covars): -0.02288 PGS R2 (no covariates): 0.00416 [0.00104, 0.00728] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006001 | PSS005837| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA FA in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.12565 [0.09628, 0.15502] Incremental R2 (full-covars): 0.04497 PGS R2 (no covariates): 0.07137 [0.04786, 0.09488] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006002 | PSS005838| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA FA in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.10587 [0.09864, 0.11309] Incremental R2 (full-covars): 0.02018 PGS R2 (no covariates): 0.01948 [0.01608, 0.02287] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006003 | PSS005839| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA FA in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.06062 [0.05038, 0.07086] Incremental R2 (full-covars): 0.01064 PGS R2 (no covariates): 0.01151 [0.00682, 0.01621] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006004 | PSS005840| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA FA in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.07886 [0.07496, 0.08277] Incremental R2 (full-covars): 0.01587 PGS R2 (no covariates): 0.01581 [0.01395, 0.01768] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005836 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005837 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005838 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005839 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005840 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |