| Predicted Trait | |
| Reported Trait | Mean FA in superior cerebellar peduncle on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25068 |
| Score Construction | |
| PGS Name | GBE_INI25068 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 1,860 |
| 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% 21,081 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 |
|---|---|---|---|---|---|---|---|---|
| — | 21,081 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005530 | PSS005366| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.12735 [0.11221, 0.14249] Incremental R2 (full-covars): -0.00363 PGS R2 (no covariates): 0.00549 [0.00191, 0.00907] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005531 | PSS005367| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.27188 [0.2359, 0.30786] Incremental R2 (full-covars): 0.01746 PGS R2 (no covariates): 0.04019 [0.02196, 0.05843] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005532 | PSS005368| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.02873 [0.02465, 0.03282] Incremental R2 (full-covars): 0.01146 PGS R2 (no covariates): 0.01378 [0.0109, 0.01665] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005533 | PSS005369| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.08859 [0.07658, 0.10061] Incremental R2 (full-covars): -0.00823 PGS R2 (no covariates): 0.00289 [0.00052, 0.00527] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005534 | PSS005370| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.03569 [0.03294, 0.03844] Incremental R2 (full-covars): 0.00653 PGS R2 (no covariates): 0.01022 [0.00871, 0.01173] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005366 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005367 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005368 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005369 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005370 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |