| Predicted Trait | |
| Reported Trait | Mean ISOVF in cingulum cingulate gyrus on FA skeleton (R) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25474 |
| Score Construction | |
| PGS Name | GBE_INI25474 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 157 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005945 | PSS005781| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in cingulum cingulate gyrus on FA skeleton (R) | — | — | R²: 0.07299 [0.06082, 0.08516] Incremental R2 (full-covars): -0.00156 PGS R2 (no covariates): 0.0 [-0.00002, 0.00002] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005946 | PSS005782| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in cingulum cingulate gyrus on FA skeleton (R) | — | — | R²: 0.09174 [0.06567, 0.11781] Incremental R2 (full-covars): 0.00743 PGS R2 (no covariates): 0.01657 [0.00457, 0.02857] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005947 | PSS005783| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in cingulum cingulate gyrus on FA skeleton (R) | — | — | R²: 0.01929 [0.01591, 0.02267] Incremental R2 (full-covars): 0.00482 PGS R2 (no covariates): 0.0056 [0.00375, 0.00745] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005948 | PSS005784| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in cingulum cingulate gyrus on FA skeleton (R) | — | — | R²: 0.05554 [0.04569, 0.0654] Incremental R2 (full-covars): 0.00687 PGS R2 (no covariates): 0.007 [0.00332, 0.01068] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005949 | PSS005785| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean ISOVF in cingulum cingulate gyrus on FA skeleton (R) | — | — | R²: 0.01415 [0.01238, 0.01592] Incremental R2 (full-covars): 0.00876 PGS R2 (no covariates): 0.01115 [0.00957, 0.01272] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005781 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005782 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005783 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005784 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005785 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |