| Predicted Trait | |
| Reported Trait | Mean ICVF in uncinate fasciculus on FA skeleton (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25389 |
| Score Construction | |
| PGS Name | GBE_INI25389 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 962 |
| 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% 21,080 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 |
|---|---|---|---|---|---|---|---|---|
| — | 21,080 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005875 | PSS005711| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in uncinate fasciculus on FA skeleton (L) | — | — | R²: 0.10863 [0.09435, 0.12291] Incremental R2 (full-covars): 0.01373 PGS R2 (no covariates): 0.01289 [0.00744, 0.01834] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005876 | PSS005712| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in uncinate fasciculus on FA skeleton (L) | — | — | R²: 0.16723 [0.13496, 0.19951] Incremental R2 (full-covars): 0.00898 PGS R2 (no covariates): 0.01611 [0.00428, 0.02795] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005877 | PSS005713| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in uncinate fasciculus on FA skeleton (L) | — | — | R²: 0.10698 [0.09973, 0.11424] Incremental R2 (full-covars): 0.02363 PGS R2 (no covariates): 0.01945 [0.01605, 0.02284] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005878 | PSS005714| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in uncinate fasciculus on FA skeleton (L) | — | — | R²: 0.041 [0.0324, 0.0496] Incremental R2 (full-covars): -0.00446 PGS R2 (no covariates): 0.00371 [0.00102, 0.0064] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005879 | PSS005715| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in uncinate fasciculus on FA skeleton (L) | — | — | R²: 0.06648 [0.06285, 0.07011] Incremental R2 (full-covars): 0.01404 PGS R2 (no covariates): 0.01365 [0.01191, 0.01539] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005711 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005712 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005713 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005714 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005715 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |