| Predicted Trait | |
| Reported Trait | WA L3 in tract inferior fronto-occipital fasciculus (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25635 |
| Score Construction | |
| PGS Name | GBE_INI25635 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 945 |
| 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% 20,323 individuals (100%) |
| PGS Evaluation | European: 40% African: 20% East Asian: 20% South Asian: 20% 5 Sample Sets |
Study Identifiers
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Sample Numbers
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Sample Ancestry
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Cohort(s)
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Phenotype Definitions & Methods
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Age of Study Participants
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Participant Follow-up Time
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Additional Ancestry Description
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Additional Sample/Cohort Information
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|---|---|---|---|---|---|---|---|---|
| — | 20,323 individuals | European | UKB | — | — | — | white British ancestry | Training + validation cohort (train_val) |
PGS Performance Metric ID (PPM) |
PGS Sample Set ID (PSS) |
Performance Source
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Trait
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PGS Effect Sizes (per SD change) |
Classification Metrics
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Other Metrics
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Covariates Included in the Model
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PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|
| PPM006310 | PSS006146| African Ancestry| 173 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.12443 [0.10914, 0.13973] Incremental R2 (full-covars): -0.00099 PGS R2 (no covariates): 0.00093 [-0.00058, 0.00243] | age, sex, UKB array type, Genotype PCs | — |
| PPM006311 | PSS006147| East Asian Ancestry| 101 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.15464 [0.12257, 0.18671] Incremental R2 (full-covars): 0.04017 PGS R2 (no covariates): 0.06434 [0.04144, 0.08723] | age, sex, UKB array type, Genotype PCs | — |
| PPM006312 | PSS006148| European Ancestry| 1,581 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.17709 [0.16832, 0.18586] Incremental R2 (full-covars): 0.03151 PGS R2 (no covariates): 0.03062 [0.02632, 0.03491] | age, sex, UKB array type, Genotype PCs | — |
| PPM006313 | PSS006149| South Asian Ancestry| 287 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.093 [0.08052, 0.10547] Incremental R2 (full-covars): 0.00345 PGS R2 (no covariates): 0.0064 [0.00282, 0.00999] | age, sex, UKB array type, Genotype PCs | — |
| PPM006314 | PSS006150| European Ancestry| 4,918 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA L3 in tract inferior fronto-occipital fasciculus (L) | — | — | R²: 0.14358 [0.13859, 0.14858] Incremental R2 (full-covars): 0.02168 PGS R2 (no covariates): 0.02105 [0.01886, 0.02323] | 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
|
|---|---|---|---|---|---|---|---|---|
| PSS006146 | — | — | 173 individuals | — | African unspecified | — | UKB | — |
| PSS006147 | — | — | 101 individuals | — | East Asian | — | UKB | — |
| PSS006148 | — | — | 1,581 individuals | — | European | non-white British ancestry | UKB | — |
| PSS006149 | — | — | 287 individuals | — | South Asian | — | UKB | — |
| PSS006150 | — | — | 4,918 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |