| Predicted Trait | |
| Reported Trait | Volume of peripheral cortical grey matter (normalised for head size) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25001 |
| Score Construction | |
| PGS Name | GBE_INI25001 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 1,112 |
| 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% 22,323 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 |
|---|---|---|---|---|---|---|---|---|
| — | 22,323 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005355 | PSS005186| African Ancestry| 200 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of peripheral cortical grey matter (normalised for head size) | — | — | R²: 0.26623 [0.24782, 0.28463] Incremental R2 (full-covars): 0.00165 PGS R2 (no covariates): 0.00102 [-0.00053, 0.00258] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005356 | PSS005187| East Asian Ancestry| 113 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of peripheral cortical grey matter (normalised for head size) | — | — | R²: 0.4474 [0.41237, 0.48243] Incremental R2 (full-covars): 0.02133 PGS R2 (no covariates): 0.01659 [0.00459, 0.0286] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005357 | PSS005188| European Ancestry| 1,739 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of peripheral cortical grey matter (normalised for head size) | — | — | R²: 0.43007 [0.42079, 0.43935] Incremental R2 (full-covars): 0.01379 PGS R2 (no covariates): 0.0122 [0.00949, 0.0149] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005358 | PSS005189| South Asian Ancestry| 329 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of peripheral cortical grey matter (normalised for head size) | — | — | R²: 0.38293 [0.36603, 0.39984] Incremental R2 (full-covars): 0.01262 PGS R2 (no covariates): 0.01815 [0.0123, 0.02401] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005359 | PSS005190| European Ancestry| 5,445 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of peripheral cortical grey matter (normalised for head size) | — | — | R²: 0.41055 [0.40485, 0.41625] Incremental R2 (full-covars): 0.00795 PGS R2 (no covariates): 0.00844 [0.00707, 0.00982] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005186 | — | — | 200 individuals | — | African unspecified | — | UKB | — |
| PSS005187 | — | — | 113 individuals | — | East Asian | — | UKB | — |
| PSS005188 | — | — | 1,739 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005189 | — | — | 329 individuals | — | South Asian | — | UKB | — |
| PSS005190 | — | — | 5,445 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |