| Predicted Trait | |
| Reported Trait | Mean FA in superior fronto-occipital fasciculus on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25098 |
| Score Construction | |
| PGS Name | GBE_INI25098 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 480 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005645 | PSS005481| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.14124 [0.12556, 0.15693] Incremental R2 (full-covars): -0.00812 PGS R2 (no covariates): 9e-05 [-0.00037, 0.00055] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005646 | PSS005482| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.15056 [0.11932, 0.18179] Incremental R2 (full-covars): 0.03357 PGS R2 (no covariates): 0.02586 [0.01101, 0.0407] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005647 | PSS005483| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.12212 [0.1145, 0.12974] Incremental R2 (full-covars): 0.00618 PGS R2 (no covariates): 0.00751 [0.00537, 0.00964] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005648 | PSS005484| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.13569 [0.1216, 0.14979] Incremental R2 (full-covars): 0.02035 PGS R2 (no covariates): 0.02379 [0.01712, 0.03046] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005649 | PSS005485| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.10714 [0.10272, 0.11155] Incremental R2 (full-covars): 0.01326 PGS R2 (no covariates): 0.01396 [0.0122, 0.01572] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005481 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005482 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005483 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005484 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005485 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |