| Predicted Trait | |
| Reported Trait | Mean FA in superior fronto-occipital fasciculus on FA skeleton (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25099 |
| Score Construction | |
| PGS Name | GBE_INI25099 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 1,286 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005650 | PSS005486| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior fronto-occipital fasciculus on FA skeleton (L) | — | — | R²: 0.14727 [0.13137, 0.16318] Incremental R2 (full-covars): 0.00391 PGS R2 (no covariates): 0.00604 [0.00229, 0.0098] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005651 | PSS005487| 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 (L) | — | — | R²: 0.17193 [0.1394, 0.20447] Incremental R2 (full-covars): 0.03024 PGS R2 (no covariates): 0.03092 [0.01477, 0.04706] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005652 | PSS005488| 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 (L) | — | — | R²: 0.15456 [0.1463, 0.16281] Incremental R2 (full-covars): 0.00551 PGS R2 (no covariates): 0.00679 [0.00476, 0.00882] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005653 | PSS005489| 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 (L) | — | — | R²: 0.15624 [0.14147, 0.171] Incremental R2 (full-covars): 0.00899 PGS R2 (no covariates): 0.01121 [0.00658, 0.01585] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005654 | PSS005490| 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 (L) | — | — | R²: 0.11874 [0.11416, 0.12333] Incremental R2 (full-covars): 0.01084 PGS R2 (no covariates): 0.01219 [0.01054, 0.01383] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005486 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005487 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005488 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005489 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005490 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |