| Predicted Trait | |
| Reported Trait | Mean ICVF in posterior thalamic radiation on FA skeleton (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25373 |
| Score Construction | |
| PGS Name | GBE_INI25373 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 2,073 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005795 | PSS005631| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.12516 [0.11011, 0.1402] Incremental R2 (full-covars): 0.00382 PGS R2 (no covariates): 0.01118 [0.0061, 0.01626] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005796 | PSS005632| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.12655 [0.0971, 0.156] Incremental R2 (full-covars): 0.05155 PGS R2 (no covariates): 0.05605 [0.03487, 0.07723] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005797 | PSS005633| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.16598 [0.15754, 0.17442] Incremental R2 (full-covars): 0.03966 PGS R2 (no covariates): 0.03873 [0.03403, 0.04342] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005798 | PSS005634| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.09248 [0.08026, 0.1047] Incremental R2 (full-covars): 0.02027 PGS R2 (no covariates): 0.02864 [0.02136, 0.03592] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005799 | PSS005635| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in posterior thalamic radiation on FA skeleton (L) | — | — | R²: 0.12204 [0.11741, 0.12667] Incremental R2 (full-covars): 0.04292 PGS R2 (no covariates): 0.0438 [0.04078, 0.04682] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005631 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005632 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005633 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005634 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005635 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |