Predicted Trait | |
Reported Trait | WA ISOVF in tract inferior fronto-occipital fasciculus (R) |
Mapped Trait(s) | |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25717 |
Score Construction | |
PGS Name | GBE_INI25717 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 1,146 |
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 |
---|---|---|---|---|---|---|---|---|
PPM006550 | PSS006386| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA ISOVF in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.18941 [0.17227, 0.20656] Incremental R2 (full-covars): 0.03946 PGS R2 (no covariates): 0.06545 [0.05383, 0.07707] |
age, sex, UKB array type, Genotype PCs | — |
PPM006551 | PSS006387| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA ISOVF in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.16059 [0.12871, 0.19247] Incremental R2 (full-covars): -0.00467 PGS R2 (no covariates): 0.00048 [-0.00159, 0.00255] |
age, sex, UKB array type, Genotype PCs | — |
PPM006552 | PSS006388| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA ISOVF in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.06651 [0.06053, 0.07249] Incremental R2 (full-covars): 0.02117 PGS R2 (no covariates): 0.02231 [0.01868, 0.02594] |
age, sex, UKB array type, Genotype PCs | — |
PPM006553 | PSS006389| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA ISOVF in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.10433 [0.09153, 0.11714] Incremental R2 (full-covars): 0.02501 PGS R2 (no covariates): 0.03195 [0.02429, 0.03962] |
age, sex, UKB array type, Genotype PCs | — |
PPM006554 | PSS006390| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: WA ISOVF in tract inferior fronto-occipital fasciculus (R) | — | — | R²: 0.07299 [0.06921, 0.07678] Incremental R2 (full-covars): 0.01508 PGS R2 (no covariates): 0.01662 [0.01471, 0.01853] |
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 |
---|---|---|---|---|---|---|---|---|
PSS006386 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
PSS006387 | — | — | 106 individuals | — | East Asian | — | UKB | — |
PSS006388 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
PSS006389 | — | — | 299 individuals | — | South Asian | — | UKB | — |
PSS006390 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |