| Predicted Trait | |
| Reported Trait | Mean FA in cingulum cingulate gyrus on FA skeleton (L) |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25091 |
| Score Construction | |
| PGS Name | GBE_INI25091 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 895 |
| 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% 21,081 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 |
|---|---|---|---|---|---|---|---|---|
| — | 21,081 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 |
|---|---|---|---|---|---|---|---|---|
| PPM005615 | PSS005451| African Ancestry| 182 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in cingulum cingulate gyrus on FA skeleton (L) | — | — | R²: 0.18767 [0.17056, 0.20477] Incremental R2 (full-covars): -0.00093 PGS R2 (no covariates): 0.00137 [-0.00043, 0.00316] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005616 | PSS005452| East Asian Ancestry| 106 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in cingulum cingulate gyrus on FA skeleton (L) | — | — | R²: 0.11248 [0.08427, 0.14068] Incremental R2 (full-covars): 0.02441 PGS R2 (no covariates): 0.03268 [0.01611, 0.04926] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005617 | PSS005453| European Ancestry| 1,651 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in cingulum cingulate gyrus on FA skeleton (L) | — | — | R²: 0.11218 [0.10479, 0.11956] Incremental R2 (full-covars): 0.00605 PGS R2 (no covariates): 0.00728 [0.00518, 0.00939] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005618 | PSS005454| South Asian Ancestry| 299 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in cingulum cingulate gyrus on FA skeleton (L) | — | — | R²: 0.13659 [0.12246, 0.15072] Incremental R2 (full-covars): 0.00803 PGS R2 (no covariates): 0.01392 [0.00877, 0.01907] |
age, sex, UKB array type, Genotype PCs | — |
| PPM005619 | PSS005455| European Ancestry| 5,120 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Mean FA in cingulum cingulate gyrus on FA skeleton (L) | — | — | R²: 0.09493 [0.09072, 0.09914] Incremental R2 (full-covars): 0.01319 PGS R2 (no covariates): 0.01229 [0.01064, 0.01395] |
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 |
|---|---|---|---|---|---|---|---|---|
| PSS005451 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
| PSS005452 | — | — | 106 individuals | — | East Asian | — | UKB | — |
| PSS005453 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005454 | — | — | 299 individuals | — | South Asian | — | UKB | — |
| PSS005455 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |