| Predicted Trait | |
| Reported Trait | Mean ISOVF in posterior thalamic radiation on FA skeleton (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25469 |
| Score Construction | |
| PGS Name | GBE_INI25469 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 554 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005925 | PSS005761| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.1287 [0.11351, 0.1439] Incremental R2 (full-covars): 0.00064 PGS R2 (no covariates): 0.00036 [-0.00056, 0.00129] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005926 | PSS005762| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.09189 [0.0658, 0.11798] Incremental R2 (full-covars): -0.00439 PGS R2 (no covariates): 0.00205 [-0.00223, 0.00633] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005927 | PSS005763| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.07469 [0.06841, 0.08097] Incremental R2 (full-covars): 0.0125 PGS R2 (no covariates): 0.00909 [0.00675, 0.01144] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005928 | PSS005764| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.03279 [0.02504, 0.04055] Incremental R2 (full-covars): -0.00099 PGS R2 (no covariates): 0.00101 [-0.0004, 0.00241] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005929 | PSS005765| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.05597 [0.0526, 0.05934] Incremental R2 (full-covars): 0.00657 PGS R2 (no covariates): 0.00712 [0.00586, 0.00839] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005761 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005762 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005763 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005764 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005765 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |