Predicted Trait | |
Reported Trait | Volume of grey matter in VIIIb Cerebellum (L) |
Mapped Trait(s) | |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25912 |
Score Construction | |
PGS Name | GBE_INI25912 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 819 |
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% 22,320 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 |
---|---|---|---|---|---|---|---|---|
— | 22,320 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 |
---|---|---|---|---|---|---|---|---|
PPM006985 | PSS006831| African Ancestry| 200 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIIb Cerebellum (L) | — | — | R²: 0.10963 [0.0953, 0.12396] Incremental R2 (full-covars): 0.00406 PGS R2 (no covariates): 0.00211 [-0.00012, 0.00433] |
age, sex, UKB array type, Genotype PCs | — |
PPM006986 | PSS006832| East Asian Ancestry| 113 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIIb Cerebellum (L) | — | — | R²: 0.04484 [0.02567, 0.06401] Incremental R2 (full-covars): -0.02009 PGS R2 (no covariates): 0.00446 [-0.00184, 0.01076] |
age, sex, UKB array type, Genotype PCs | — |
PPM006987 | PSS006833| European Ancestry| 1,739 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIIb Cerebellum (L) | — | — | R²: 0.1154 [0.10793, 0.12286] Incremental R2 (full-covars): 0.01183 PGS R2 (no covariates): 0.01326 [0.01044, 0.01608] |
age, sex, UKB array type, Genotype PCs | — |
PPM006988 | PSS006834| South Asian Ancestry| 329 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIIb Cerebellum (L) | — | — | R²: 0.10636 [0.09345, 0.11926] Incremental R2 (full-covars): -0.01434 PGS R2 (no covariates): 0.00086 [-0.00044, 0.00216] |
age, sex, UKB array type, Genotype PCs | — |
PPM006989 | PSS006835| European Ancestry| 5,443 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIIb Cerebellum (L) | — | — | R²: 0.09461 [0.09041, 0.09882] Incremental R2 (full-covars): 0.01744 PGS R2 (no covariates): 0.01832 [0.01631, 0.02032] |
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 |
---|---|---|---|---|---|---|---|---|
PSS006831 | — | — | 200 individuals | — | African unspecified | — | UKB | — |
PSS006832 | — | — | 113 individuals | — | East Asian | — | UKB | — |
PSS006833 | — | — | 1,739 individuals | — | European | non-white British ancestry | UKB | — |
PSS006834 | — | — | 329 individuals | — | South Asian | — | UKB | — |
PSS006835 | — | — | 5,443 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |