Predicted Trait | |
Reported Trait | Volume of grey matter in VIIb Cerebellum (R) |
Mapped Trait(s) | |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25908 |
Score Construction | |
PGS Name | GBE_INI25908 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 673 |
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 |
---|---|---|---|---|---|---|---|---|
PPM006965 | PSS006811| African Ancestry| 200 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIb Cerebellum (R) | — | — | R²: 0.05955 [0.04839, 0.0707] Incremental R2 (full-covars): -0.00382 PGS R2 (no covariates): 0.00101 [-0.00053, 0.00255] |
age, sex, UKB array type, Genotype PCs | — |
PPM006966 | PSS006812| East Asian Ancestry| 113 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIb Cerebellum (R) | — | — | R²: 0.20623 [0.17207, 0.24039] Incremental R2 (full-covars): 0.01192 PGS R2 (no covariates): 0.0328 [0.0162, 0.0494] |
age, sex, UKB array type, Genotype PCs | — |
PPM006967 | PSS006813| European Ancestry| 1,739 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIb Cerebellum (R) | — | — | R²: 0.13728 [0.12934, 0.14522] Incremental R2 (full-covars): 0.01895 PGS R2 (no covariates): 0.02497 [0.02114, 0.02879] |
age, sex, UKB array type, Genotype PCs | — |
PPM006968 | PSS006814| South Asian Ancestry| 329 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIb Cerebellum (R) | — | — | R²: 0.16752 [0.15243, 0.1826] Incremental R2 (full-covars): 0.00365 PGS R2 (no covariates): 0.00593 [0.00254, 0.00932] |
age, sex, UKB array type, Genotype PCs | — |
PPM006969 | PSS006815| European Ancestry| 5,443 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in VIIb Cerebellum (R) | — | — | R²: 0.11712 [0.11256, 0.12168] Incremental R2 (full-covars): 0.02003 PGS R2 (no covariates): 0.02007 [0.01797, 0.02216] |
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 |
---|---|---|---|---|---|---|---|---|
PSS006812 | — | — | 113 individuals | — | East Asian | — | UKB | — |
PSS006813 | — | — | 1,739 individuals | — | European | non-white British ancestry | UKB | — |
PSS006814 | — | — | 329 individuals | — | South Asian | — | UKB | — |
PSS006815 | — | — | 5,443 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |
PSS006811 | — | — | 200 individuals | — | African unspecified | — | UKB | — |