| Predicted Trait | |
| Reported Trait | Mean ICVF in posterior thalamic radiation on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25372 |
| Score Construction | |
| PGS Name | GBE_INI25372 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 1,753 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005790 | PSS005626| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (R) | — | — | R²: 0.11902 [0.10425, 0.1338] Incremental R2 (full-covars): -0.00606 PGS R2 (no covariates): 0.00203 [-0.00015, 0.00422] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005791 | PSS005627| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (R) | — | — | R²: 0.10198 [0.07481, 0.12916] Incremental R2 (full-covars): 0.0366 PGS R2 (no covariates): 0.04564 [0.02632, 0.06496] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005792 | PSS005628| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (R) | — | — | R²: 0.15173 [0.14352, 0.15994] Incremental R2 (full-covars): 0.04436 PGS R2 (no covariates): 0.04296 [0.03803, 0.04789] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005793 | PSS005629| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (R) | — | — | R²: 0.09222 [0.08001, 0.10442] Incremental R2 (full-covars): 0.02953 PGS R2 (no covariates): 0.03434 [0.02642, 0.04226] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005794 | PSS005630| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (R) | — | — | R²: 0.10493 [0.10055, 0.10931] Incremental R2 (full-covars): 0.04115 PGS R2 (no covariates): 0.04204 [0.03908, 0.04501] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005628 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005629 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005630 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |
| PSS005626 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005627 | — | — | 106 individuals | — | East Asian | — | UKB | — |