| Predicted Trait | |
| Reported Trait | WA ICVF in tract uncinate fasciculus (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25675 |
| Score Construction | |
| PGS Name | GBE_INI25675 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 136 |
| 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
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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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|---|---|---|---|---|---|---|---|---|
| — | 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
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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 |
|---|---|---|---|---|---|---|---|---|
| PPM006480 | PSS006316| African Ancestry| 182 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract uncinate fasciculus (L) | — | — | R²: 0.07772 [0.06522, 0.09022] Incremental R2 (full-covars): 0.01227 PGS R2 (no covariates): 0.0128 [0.00737, 0.01823] | age, sex, UKB array type, Genotype PCs | — |
| PPM006481 | PSS006317| East Asian Ancestry| 106 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract uncinate fasciculus (L) | — | — | R²: 0.11249 [0.08428, 0.1407] Incremental R2 (full-covars): 0.00083 PGS R2 (no covariates): 0.00087 [-0.00192, 0.00366] | age, sex, UKB array type, Genotype PCs | — |
| PPM006482 | PSS006318| European Ancestry| 1,651 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract uncinate fasciculus (L) | — | — | R²: 0.1454 [0.13731, 0.15349] Incremental R2 (full-covars): 0.02492 PGS R2 (no covariates): 0.03243 [0.0281, 0.03675] | age, sex, UKB array type, Genotype PCs | — |
| PPM006483 | PSS006319| South Asian Ancestry| 299 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract uncinate fasciculus (L) | — | — | R²: 0.05479 [0.04499, 0.06458] Incremental R2 (full-covars): 0.00794 PGS R2 (no covariates): 0.01162 [0.0069, 0.01634] | age, sex, UKB array type, Genotype PCs | — |
| PPM006484 | PSS006320| European Ancestry| 5,120 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract uncinate fasciculus (L) | — | — | R²: 0.08052 [0.07658, 0.08446] Incremental R2 (full-covars): 0.01065 PGS R2 (no covariates): 0.01131 [0.00972, 0.01289] | 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
|
|---|---|---|---|---|---|---|---|---|
| PSS006316 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS006317 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS006318 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS006319 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS006320 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |