| Predicted Trait | |
| Reported Trait | Mean ICVF in inferior cerebellar peduncle on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25354 |
| Score Construction | |
| PGS Name | GBE_INI25354 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 1,262 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005700 | PSS005536| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in inferior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.11548 [0.10087, 0.13009] Incremental R2 (full-covars): -0.0165 PGS R2 (no covariates): 0.00025 [-0.00052, 0.00101] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005701 | PSS005537| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in inferior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.18727 [0.15394, 0.2206] Incremental R2 (full-covars): 0.03473 PGS R2 (no covariates): 0.0677 [0.04471, 0.09069] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005702 | PSS005538| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in inferior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.1201 [0.11253, 0.12767] Incremental R2 (full-covars): 0.04591 PGS R2 (no covariates): 0.04589 [0.04081, 0.05097] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005703 | PSS005539| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in inferior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.04952 [0.04016, 0.05889] Incremental R2 (full-covars): -0.0186 PGS R2 (no covariates): 0.00012 [-0.00036, 0.0006] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005704 | PSS005540| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in inferior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.09087 [0.08674, 0.09501] Incremental R2 (full-covars): 0.02959 PGS R2 (no covariates): 0.03075 [0.02818, 0.03331] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005536 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005537 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005538 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005539 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005540 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |