| Predicted Trait | |
| Reported Trait | WA ISOVF in tract posterior thalamic radiation (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25724 |
| Score Construction | |
| PGS Name | GBE_INI25724 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 72 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM006565 | PSS006401| African Ancestry| 182 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ISOVF in tract posterior thalamic radiation (R) | — | — | R²: 0.18084 [0.16391, 0.19777] Incremental R2 (full-covars): 0.00362 PGS R2 (no covariates): 0.0035 [0.00063, 0.00636] | age, sex, UKB array type, Genotype PCs | — |
| PPM006566 | PSS006402| East Asian Ancestry| 106 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ISOVF in tract posterior thalamic radiation (R) | — | — | R²: 0.16431 [0.13221, 0.19642] Incremental R2 (full-covars): 0.00734 PGS R2 (no covariates): 0.02538 [0.01066, 0.04009] | age, sex, UKB array type, Genotype PCs | — |
| PPM006567 | PSS006403| European Ancestry| 1,651 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ISOVF in tract posterior thalamic radiation (R) | — | — | R²: 0.11673 [0.10923, 0.12422] Incremental R2 (full-covars): 0.00392 PGS R2 (no covariates): 0.00502 [0.00327, 0.00677] | age, sex, UKB array type, Genotype PCs | — |
| PPM006568 | PSS006404| South Asian Ancestry| 299 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ISOVF in tract posterior thalamic radiation (R) | — | — | R²: 0.08255 [0.07088, 0.09422] Incremental R2 (full-covars): -0.00669 PGS R2 (no covariates): 0.00338 [0.00081, 0.00594] | age, sex, UKB array type, Genotype PCs | — |
| PPM006569 | PSS006405| European Ancestry| 5,120 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ISOVF in tract posterior thalamic radiation (R) | — | — | R²: 0.11749 [0.11292, 0.12206] Incremental R2 (full-covars): 0.00306 PGS R2 (no covariates): 0.0035 [0.00261, 0.00439] | 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
|
|---|---|---|---|---|---|---|---|---|
| PSS006401 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS006402 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS006403 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS006404 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS006405 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |