| Predicted Trait | |
| Reported Trait | Mean ISOVF in superior cerebellar peduncle on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25452 |
| Score Construction | |
| PGS Name | GBE_INI25452 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 666 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005895 | PSS005731| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.087 [0.07391, 0.10009] Incremental R2 (full-covars): 0.00177 PGS R2 (no covariates): 0.00383 [0.00083, 0.00683] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005896 | PSS005732| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.14595 [0.11503, 0.17687] Incremental R2 (full-covars): 0.01693 PGS R2 (no covariates): 0.03993 [0.02175, 0.05811] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005897 | PSS005733| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.03088 [0.02665, 0.03511] Incremental R2 (full-covars): 0.00562 PGS R2 (no covariates): 0.00514 [0.00337, 0.00691] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005898 | PSS005734| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.06515 [0.05458, 0.07571] Incremental R2 (full-covars): 0.00188 PGS R2 (no covariates): 0.00384 [0.00111, 0.00657] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005899 | PSS005735| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.04125 [0.03831, 0.04419] Incremental R2 (full-covars): 0.00617 PGS R2 (no covariates): 0.00621 [0.00503, 0.00739] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005731 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005732 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005733 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005734 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005735 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |