| Predicted Trait | |
| Reported Trait | Mean FA in uncinate fasciculus on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25100 |
| Score Construction | |
| PGS Name | GBE_INI25100 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 727 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005655 | PSS005491| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in uncinate fasciculus on FA skeleton (R) | — | — | R²: 0.11006 [0.09571, 0.12441] Incremental R2 (full-covars): 0.01332 PGS R2 (no covariates): 0.02879 [0.02078, 0.0368] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005656 | PSS005492| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in uncinate fasciculus on FA skeleton (R) | — | — | R²: 0.11066 [0.08263, 0.1387] Incremental R2 (full-covars): 0.01164 PGS R2 (no covariates): 0.02004 [0.0069, 0.03319] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005657 | PSS005493| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in uncinate fasciculus on FA skeleton (R) | — | — | R²: 0.03569 [0.03116, 0.04021] Incremental R2 (full-covars): 0.00913 PGS R2 (no covariates): 0.01032 [0.00782, 0.01281] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005658 | PSS005494| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in uncinate fasciculus on FA skeleton (R) | — | — | R²: 0.08161 [0.06999, 0.09323] Incremental R2 (full-covars): 0.00633 PGS R2 (no covariates): 0.01409 [0.0089, 0.01927] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005659 | PSS005495| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in uncinate fasciculus on FA skeleton (R) | — | — | R²: 0.03074 [0.02817, 0.0333] Incremental R2 (full-covars): 0.00786 PGS R2 (no covariates): 0.00774 [0.00642, 0.00906] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005491 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005492 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005493 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005494 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005495 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |