| Predicted Trait | |
| Reported Trait | Mean ICVF in superior cerebellar peduncle on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25356 |
| Score Construction | |
| PGS Name | GBE_INI25356 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 1,420 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005710 | PSS005546| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.05252 [0.04196, 0.06307] Incremental R2 (full-covars): -0.01369 PGS R2 (no covariates): 0.0005 [-0.00059, 0.00158] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005711 | PSS005547| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.27369 [0.23768, 0.3097] Incremental R2 (full-covars): 0.01594 PGS R2 (no covariates): 0.04077 [0.02242, 0.05913] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005712 | PSS005548| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.07303 [0.06681, 0.07925] Incremental R2 (full-covars): 0.02367 PGS R2 (no covariates): 0.02543 [0.02157, 0.02929] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005713 | PSS005549| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.06534 [0.05476, 0.07592] Incremental R2 (full-covars): 0.00545 PGS R2 (no covariates): 0.01016 [0.00574, 0.01457] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005714 | PSS005550| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior cerebellar peduncle on FA skeleton (R) | — | — | R²: 0.08076 [0.07682, 0.0847] Incremental R2 (full-covars): 0.02057 PGS R2 (no covariates): 0.02151 [0.01935, 0.02368] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005546 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005547 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005548 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005549 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005550 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |