Predicted Trait | |
Reported Trait | Impedance (left leg) |
Mapped Trait(s) | body composition measurement (EFO_0005106) |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI23108 |
Score Construction | |
PGS Name | GBE_INI23108 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 28,999 |
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% 265,394 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 |
---|---|---|---|---|---|---|---|---|
— | 265,394 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 |
---|---|---|---|---|---|---|---|---|
PPM008497 | PSS005071| African Ancestry| 6,310 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of leg (L) | — | — | R²: 0.09719 [0.08351, 0.11087] Incremental R2 (full-covars): 0.01992 PGS R2 (no covariates): 0.0278 [0.01992, 0.03567] |
age, sex, UKB array type, Genotype PCs | — |
PPM008498 | PSS005072| East Asian Ancestry| 1,681 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of leg (L) | — | — | R²: 0.31023 [0.27382, 0.34664] Incremental R2 (full-covars): 0.0341 PGS R2 (no covariates): 0.0409 [0.02252, 0.05928] |
age, sex, UKB array type, Genotype PCs | — |
PPM008499 | PSS005073| European Ancestry| 24,474 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of leg (L) | — | — | R²: 0.28199 [0.27252, 0.29146] Incremental R2 (full-covars): 0.09762 PGS R2 (no covariates): 0.09753 [0.09054, 0.10453] |
age, sex, UKB array type, Genotype PCs | — |
PPM008500 | PSS005074| South Asian Ancestry| 7,653 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of leg (L) | — | — | R²: 0.20912 [0.1931, 0.22513] Incremental R2 (full-covars): 0.07366 PGS R2 (no covariates): 0.07706 [0.06572, 0.0884] |
age, sex, UKB array type, Genotype PCs | — |
PPM008501 | PSS005075| European Ancestry| 66,310 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Impedance of leg (L) | — | — | R²: 0.284 [0.27824, 0.28976] Incremental R2 (full-covars): 0.10535 PGS R2 (no covariates): 0.10691 [0.1025, 0.11132] |
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 |
---|---|---|---|---|---|---|---|---|
PSS005071 | — | — | 6,310 individuals | — | African unspecified | — | UKB | — |
PSS005072 | — | — | 1,681 individuals | — | East Asian | — | UKB | — |
PSS005073 | — | — | 24,474 individuals | — | European | non-white British ancestry | UKB | — |
PSS005074 | — | — | 7,653 individuals | — | South Asian | — | UKB | — |
PSS005075 | — | — | 66,310 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |