| Predicted Trait | |
| Reported Trait | WA MD in tract inferior fronto-occipital fasciculus (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25528 |
| Score Construction | |
| PGS Name | GBE_INI25528 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 702 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM006080 | PSS005916| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA MD in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.20755 [0.19001, 0.2251] Incremental R2 (full-covars): 0.02567 PGS R2 (no covariates): 0.02832 [0.02037, 0.03627] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006081 | PSS005917| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA MD in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.24701 [0.21154, 0.28247] Incremental R2 (full-covars): 0.05122 PGS R2 (no covariates): 0.06775 [0.04476, 0.09075] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006082 | PSS005918| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA MD in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.17033 [0.16183, 0.17883] Incremental R2 (full-covars): 0.01889 PGS R2 (no covariates): 0.01864 [0.01532, 0.02197] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006083 | PSS005919| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA MD in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.03693 [0.02874, 0.04513] Incremental R2 (full-covars): -0.00473 PGS R2 (no covariates): 0.00075 [-0.00046, 0.00196] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006084 | PSS005920| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA MD in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.15051 [0.14554, 0.15548] Incremental R2 (full-covars): 0.01863 PGS R2 (no covariates): 0.01754 [0.01558, 0.01951] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005916 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005917 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005918 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005919 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005920 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |