| Predicted Trait | |
| Reported Trait | Volume of grey matter in Lateral Occipital Cortex, superior division (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25825 |
| Score Construction | |
| PGS Name | GBE_INI25825 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 581 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM006685 | PSS006521| African Ancestry| 200 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in Lateral Occipital Cortex, superior division (R) | — | — | R²: 0.14155 [0.12585, 0.15725] Incremental R2 (full-covars): 0.00073 PGS R2 (no covariates): 0.00306 [0.00038, 0.00574] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006686 | PSS006522| East Asian Ancestry| 113 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in Lateral Occipital Cortex, superior division (R) | — | — | R²: 0.23982 [0.20454, 0.2751] Incremental R2 (full-covars): 0.00201 PGS R2 (no covariates): 0.00605 [-0.00128, 0.01338] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006687 | PSS006523| European Ancestry| 1,739 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in Lateral Occipital Cortex, superior division (R) | — | — | R²: 0.19404 [0.18522, 0.20285] Incremental R2 (full-covars): -0.00131 PGS R2 (no covariates): 0.00052 [-0.00004, 0.00109] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006688 | PSS006524| South Asian Ancestry| 329 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in Lateral Occipital Cortex, superior division (R) | — | — | R²: 0.17329 [0.15805, 0.18852] Incremental R2 (full-covars): 0.01003 PGS R2 (no covariates): 0.00544 [0.00219, 0.00869] |
age, sex, UKB array type, Genotype PCs | — |
| PPM006689 | PSS006525| European Ancestry| 5,443 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Vol. of grey matter in Lateral Occipital Cortex, superior division (R) | — | — | R²: 0.12591 [0.12123, 0.1306] Incremental R2 (full-covars): 0.00536 PGS R2 (no covariates): 0.00566 [0.00453, 0.00679] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS006524 | — | — | 329 individuals | — | South Asian | — | UKB | — |
| PSS006525 | — | — | 5,443 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |
| PSS006521 | — | — | 200 individuals | — | African unspecified | — | UKB | — |
| PSS006522 | — | — | 113 individuals | — | East Asian | — | UKB | — |
| PSS006523 | — | — | 1,739 individuals | — | European | non-white British ancestry | UKB | — |