Predicted Trait | |
Reported Trait | Basal metabolic rate |
Mapped Trait(s) | base metabolic rate measurement (EFO_0007777) |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI23105 |
Score Construction | |
PGS Name | GBE_INI23105 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 32,154 |
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% 265,174 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 |
---|---|---|---|---|---|---|---|---|
— | 265,174 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 |
---|---|---|---|---|---|---|---|---|
PPM008279 | PSS005056| African Ancestry| 6,305 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Basal metabolic rate | — | — | R²: 0.48988 [0.47253, 0.50723] Incremental R2 (full-covars): 0.0123 PGS R2 (no covariates): 0.02112 [0.01421, 0.02804] |
age, sex, UKB array type, Genotype PCs | — |
PPM008280 | PSS005057| East Asian Ancestry| 1,680 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Basal metabolic rate | — | — | R²: 0.69641 [0.6724, 0.72042] Incremental R2 (full-covars): 0.00563 PGS R2 (no covariates): 0.02063 [0.0073, 0.03395] |
age, sex, UKB array type, Genotype PCs | — |
PPM008281 | PSS005058| European Ancestry| 24,466 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Basal metabolic rate | — | — | R²: 0.68913 [0.68272, 0.69554] Incremental R2 (full-covars): 0.0528 PGS R2 (no covariates): 0.05431 [0.04883, 0.05978] |
age, sex, UKB array type, Genotype PCs | — |
PPM008282 | PSS005059| South Asian Ancestry| 7,649 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Basal metabolic rate | — | — | R²: 0.6137 [0.60031, 0.6271] Incremental R2 (full-covars): 0.04025 PGS R2 (no covariates): 0.03213 [0.02445, 0.03981] |
age, sex, UKB array type, Genotype PCs | — |
PPM008283 | PSS005060| European Ancestry| 66,261 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Basal metabolic rate | — | — | R²: 0.68963 [0.68574, 0.69352] Incremental R2 (full-covars): 0.06041 PGS R2 (no covariates): 0.05937 [0.05591, 0.06283] |
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 |
---|---|---|---|---|---|---|---|---|
PSS005056 | — | — | 6,305 individuals | — | African unspecified | — | UKB | — |
PSS005057 | — | — | 1,680 individuals | — | East Asian | — | UKB | — |
PSS005058 | — | — | 24,466 individuals | — | European | non-white British ancestry | UKB | — |
PSS005059 | — | — | 7,649 individuals | — | South Asian | — | UKB | — |
PSS005060 | — | — | 66,261 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |