| Predicted Trait | |
| Reported Trait | WA L1 in tract inferior fronto-occipital fasciculus (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25581 |
| Score Construction | |
| PGS Name | GBE_INI25581 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 547 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM006160 | PSS005996| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.14714 [0.13124, 0.16304] Incremental R2 (full-covars): 0.02101 PGS R2 (no covariates): 0.04322 [0.03356, 0.05289] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006161 | PSS005997| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.16717 [0.1349, 0.19944] Incremental R2 (full-covars): 0.04017 PGS R2 (no covariates): 0.03601 [0.01867, 0.05335] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006162 | PSS005998| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.10384 [0.09667, 0.11101] Incremental R2 (full-covars): 0.00584 PGS R2 (no covariates): 0.00534 [0.00354, 0.00715] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006163 | PSS005999| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.02237 [0.01589, 0.02884] Incremental R2 (full-covars): -0.00099 PGS R2 (no covariates): 9e-05 [-0.00033, 0.00052] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006164 | PSS006000| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA L1 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.08335 [0.07936, 0.08735] Incremental R2 (full-covars): 0.00476 PGS R2 (no covariates): 0.00564 [0.00451, 0.00677] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005996 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005997 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005998 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005999 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS006000 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |