Predicted Trait | |
Reported Trait | Impedance (left arm) |
Mapped Trait(s) | body composition measurement (EFO_0005106) |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI23110 |
Score Construction | |
PGS Name | GBE_INI23110 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 26,740 |
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% 265,390 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 |
---|---|---|---|---|---|---|---|---|
— | 265,390 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 |
---|---|---|---|---|---|---|---|---|
PPM008492 | PSS005081| African Ancestry| 6,310 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of arm (L) | — | — | R²: 0.40184 [0.38341, 0.42027] Incremental R2 (full-covars): 0.00929 PGS R2 (no covariates): 0.01779 [0.01142, 0.02415] |
age, sex, UKB array type, Genotype PCs | — |
PPM008493 | PSS005082| East Asian Ancestry| 1,681 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of arm (L) | — | — | R²: 0.57437 [0.5438, 0.60494] Incremental R2 (full-covars): 0.01873 PGS R2 (no covariates): 0.01902 [0.0062, 0.03184] |
age, sex, UKB array type, Genotype PCs | — |
PPM008494 | PSS005083| European Ancestry| 24,474 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of arm (L) | — | — | R²: 0.57497 [0.56697, 0.58297] Incremental R2 (full-covars): 0.0528 PGS R2 (no covariates): 0.05187 [0.0465, 0.05723] |
age, sex, UKB array type, Genotype PCs | — |
PPM008495 | PSS005084| South Asian Ancestry| 7,653 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of arm (L) | — | — | R²: 0.53183 [0.51672, 0.54695] Incremental R2 (full-covars): 0.03819 PGS R2 (no covariates): 0.03481 [0.02684, 0.04279] |
age, sex, UKB array type, Genotype PCs | — |
PPM008496 | PSS005085| European Ancestry| 66,310 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of arm (L) | — | — | R²: 0.58392 [0.57912, 0.58872] Incremental R2 (full-covars): 0.05546 PGS R2 (no covariates): 0.05563 [0.05227, 0.05899] |
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 |
---|---|---|---|---|---|---|---|---|
PSS005084 | — | — | 7,653 individuals | — | South Asian | — | UKB | — |
PSS005085 | — | — | 66,310 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |
PSS005081 | — | — | 6,310 individuals | — | African unspecified | — | UKB | — |
PSS005082 | — | — | 1,681 individuals | — | East Asian | — | UKB | — |
PSS005083 | — | — | 24,474 individuals | — | European | non-white British ancestry | UKB | — |