| Predicted Trait | |
| Reported Trait | Spherical power (right eye) |
| Mapped Trait(s) | refractive error measurement (EFO_0007814) |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI5084 |
| Score Construction | |
| PGS Name | GBE_INI5084 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 7,350 |
| 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% 66,193 individuals (100%) |
| PGS Evaluation | European: 40% African: 20% East Asian: 20% South Asian: 20% 5 Sample Sets |
Study Identifiers
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Sample Numbers
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Sample Ancestry
|
Cohort(s)
|
Phenotype Definitions & Methods
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Age of Study Participants
|
Participant Follow-up Time
|
Additional Ancestry Description
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Additional Sample/Cohort Information
|
|---|---|---|---|---|---|---|---|---|
| — | 66,193 individuals | European | UKB | — | — | — | white British ancestry | — |
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 |
|---|---|---|---|---|---|---|---|---|
| PPM008239 | PSS007366| African Ancestry| 3,314 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Spherical power (R) | — | — | R²: 0.03542 [0.02659, 0.04424] Incremental R2 (full-covars): 0.00616 PGS R2 (no covariates): 0.01203 [0.00676, 0.0173] | age, sex, UKB array type, Genotype PCs | — |
| PPM008240 | PSS007367| East Asian Ancestry| 597 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Spherical power (R) | — | — | R²: 0.1128 [0.08456, 0.14104] Incremental R2 (full-covars): 0.02771 PGS R2 (no covariates): 0.03839 [0.02053, 0.05624] | age, sex, UKB array type, Genotype PCs | — |
| PPM008241 | PSS007368| European Ancestry| 7,920 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Spherical power (R) | — | — | R²: 0.10687 [0.09962, 0.11412] Incremental R2 (full-covars): 0.07031 PGS R2 (no covariates): 0.0711 [0.06495, 0.07725] | age, sex, UKB array type, Genotype PCs | — |
| PPM008242 | PSS007369| South Asian Ancestry| 3,663 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Spherical power (R) | — | — | R²: 0.06585 [0.05523, 0.07646] Incremental R2 (full-covars): 0.0281 PGS R2 (no covariates): 0.03071 [0.02319, 0.03823] | age, sex, UKB array type, Genotype PCs | — |
| PPM008243 | PSS007370| European Ancestry| 16,545 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Spherical power (R) | — | — | R²: 0.11691 [0.11236, 0.12147] Incremental R2 (full-covars): 0.0945 PGS R2 (no covariates): 0.09518 [0.09097, 0.0994] | 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
|
|---|---|---|---|---|---|---|---|---|
| PSS007366 | — | — | 3,314 individuals | — | African unspecified | — | UKB | — |
| PSS007367 | — | — | 597 individuals | — | East Asian | — | UKB | — |
| PSS007368 | — | — | 7,920 individuals | — | European | non-white British ancestry | UKB | — |
| PSS007369 | — | — | 3,663 individuals | — | South Asian | — | UKB | — |
| PSS007370 | — | — | 16,545 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |