| Predicted Trait | |
| Reported Trait | WA L1 in tract inferior fronto-occipital fasciculus (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25582 |
| Score Construction | |
| PGS Name | GBE_INI25582 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 322 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM006165 | PSS006001| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.15521 [0.13904, 0.17139] Incremental R2 (full-covars): 0.00582 PGS R2 (no covariates): 0.00819 [0.00383, 0.01256] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006166 | PSS006002| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.27054 [0.23459, 0.3065] Incremental R2 (full-covars): 0.03513 PGS R2 (no covariates): 0.04797 [0.02821, 0.06773] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006167 | PSS006003| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.11607 [0.1086, 0.12355] Incremental R2 (full-covars): 0.01031 PGS R2 (no covariates): 0.00989 [0.00745, 0.01234] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006168 | PSS006004| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.02769 [0.02052, 0.03485] Incremental R2 (full-covars): -0.00115 PGS R2 (no covariates): 0.00037 [-0.00048, 0.00121] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006169 | PSS006005| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.11029 [0.10583, 0.11475] Incremental R2 (full-covars): 0.00726 PGS R2 (no covariates): 0.00787 [0.00654, 0.00919] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS006001 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS006002 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS006003 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS006004 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS006005 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |