| Predicted Trait | |
| Reported Trait | Mean ICVF in superior fronto-occipital fasciculus on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25386 |
| Score Construction | |
| PGS Name | GBE_INI25386 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 703 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005860 | PSS005696| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.22727 [0.20936, 0.24517] Incremental R2 (full-covars): -0.02183 PGS R2 (no covariates): 0.00421 [0.00107, 0.00734] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005861 | PSS005697| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.21255 [0.17814, 0.24695] Incremental R2 (full-covars): 0.04708 PGS R2 (no covariates): 0.08153 [0.05668, 0.10638] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005862 | PSS005698| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.26319 [0.2538, 0.27257] Incremental R2 (full-covars): 0.006 PGS R2 (no covariates): 0.00385 [0.00232, 0.00539] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005863 | PSS005699| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.19844 [0.18263, 0.21425] Incremental R2 (full-covars): 0.00231 PGS R2 (no covariates): 0.00356 [0.00093, 0.00619] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005864 | PSS005700| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ICVF in superior fronto-occipital fasciculus on FA skeleton (R) | — | — | R²: 0.19676 [0.19138, 0.20213] Incremental R2 (full-covars): 0.0071 PGS R2 (no covariates): 0.00794 [0.00661, 0.00928] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005696 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005697 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005698 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005699 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005700 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |