Predicted Trait | |
Reported Trait | Poultry intake |
Mapped Trait(s) | diet measurement (EFO_0008111) |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1001359 |
Score Construction | |
PGS Name | GBE_QT_FC1001359 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 1,609 |
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% 269,294 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 |
---|---|---|---|---|---|---|---|---|
— | 269,294 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 |
---|---|---|---|---|---|---|---|---|
PPM008088 | PSS007551| African Ancestry| 6,377 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Poultry intake | — | — | PGS R2 (no covariates): 0.00093 [-0.00055, 0.00241] R²: 0.02159 [0.0146, 0.02858] Incremental R2 (full-covars): 0.00053 |
age, sex, UKB array type, Genotype PCs | — |
PPM008089 | PSS007552| East Asian Ancestry| 1,655 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Poultry intake | — | — | R²: 0.0497 [0.02962, 0.06977] Incremental R2 (full-covars): -0.00108 PGS R2 (no covariates): 0.00013 [-0.00097, 0.00123] |
age, sex, UKB array type, Genotype PCs | — |
PPM008090 | PSS007553| European Ancestry| 24,847 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Poultry intake | — | — | R²: 0.00958 [0.00717, 0.01199] Incremental R2 (full-covars): 0.0005 PGS R2 (no covariates): 0.00079 [0.00009, 0.00149] |
age, sex, UKB array type, Genotype PCs | — |
PPM008091 | PSS007554| South Asian Ancestry| 7,623 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Poultry intake | — | — | R²: 0.15633 [0.14156, 0.1711] Incremental R2 (full-covars): -0.00044 PGS R2 (no covariates): 0.00074 [-0.00046, 0.00195] |
age, sex, UKB array type, Genotype PCs | — |
PPM008092 | PSS007555| European Ancestry| 67,313 individuals |
PGP000244 | Tanigawa Y et al. PLoS Genet (2022) |
Reported Trait: Poultry intake | — | — | R²: 0.00656 [0.00535, 0.00778] Incremental R2 (full-covars): 0.0012 PGS R2 (no covariates): 0.00124 [0.00071, 0.00177] |
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 |
---|---|---|---|---|---|---|---|---|
PSS007551 | — | — | 6,377 individuals | — | African unspecified | — | UKB | — |
PSS007552 | — | — | 1,655 individuals | — | East Asian | — | UKB | — |
PSS007553 | — | — | 24,847 individuals | — | European | non-white British ancestry | UKB | — |
PSS007554 | — | — | 7,623 individuals | — | South Asian | — | UKB | — |
PSS007555 | — | — | 67,313 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |