| Predicted Trait | |
| Reported Trait | Mean ICVF in superior cerebellar peduncle on FA skeleton (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25357 |
| Score Construction | |
| PGS Name | GBE_INI25357 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 2,068 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005715 | PSS005551| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (L) | — | — | R²: 0.03035 [0.02214, 0.03856] Incremental R2 (full-covars): -0.01973 PGS R2 (no covariates): 1e-05 [-0.00011, 0.00012] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005716 | PSS005552| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (L) | — | — | R²: 0.233 [0.19792, 0.26809] Incremental R2 (full-covars): 0.03364 PGS R2 (no covariates): 0.0586 [0.037, 0.0802] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005717 | PSS005553| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (L) | — | — | R²: 0.05341 [0.04798, 0.05884] Incremental R2 (full-covars): 0.02487 PGS R2 (no covariates): 0.02412 [0.02036, 0.02789] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005718 | PSS005554| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (L) | — | — | R²: 0.07073 [0.05979, 0.08167] Incremental R2 (full-covars): 0.00382 PGS R2 (no covariates): 0.01169 [0.00696, 0.01642] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005719 | PSS005555| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (L) | — | — | R²: 0.05252 [0.04924, 0.0558] Incremental R2 (full-covars): 0.01824 PGS R2 (no covariates): 0.02038 [0.01827, 0.0225] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005551 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005552 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005553 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005554 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005555 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |