| Predicted Trait | |
| Reported Trait | Processed meat intake |
| Mapped Trait(s) | diet measurement (EFO_0008111) |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1001349 |
| Score Construction | |
| PGS Name | GBE_QT_FC1001349 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 2,346 |
| 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% 269,358 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
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Cohort(s)
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Phenotype Definitions & Methods
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Age of Study Participants
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Participant Follow-up Time
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Additional Ancestry Description
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Additional Sample/Cohort Information
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|---|---|---|---|---|---|---|---|---|
| — | 269,358 individuals | European | UKB | — | — | — | white British ancestry | — |
PGS Performance Metric ID (PPM) |
PGS Sample Set ID (PSS) |
Performance Source
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Trait
|
PGS Effect Sizes (per SD change) |
Classification Metrics
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Other Metrics
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Covariates Included in the Model
|
PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|
| PPM008093 | PSS007546| African Ancestry| 6,311 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Processed meat intake | — | — | R²: 0.05609 [0.04522, 0.06695] Incremental R2 (full-covars): 0.00153 PGS R2 (no covariates): 0.00178 [-0.00027, 0.00382] | age, sex, UKB array type, Genotype PCs | — |
| PPM008094 | PSS007547| East Asian Ancestry| 1,642 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Processed meat intake | — | — | R²: 0.07224 [0.04861, 0.09588] Incremental R2 (full-covars): -0.0026 PGS R2 (no covariates): 4e-05 [-0.00058, 0.00066] | age, sex, UKB array type, Genotype PCs | — |
| PPM008095 | PSS007548| European Ancestry| 24,852 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Processed meat intake | — | — | R²: 0.10754 [0.10027, 0.11481] Incremental R2 (full-covars): 0.00194 PGS R2 (no covariates): 0.003 [0.00165, 0.00436] | age, sex, UKB array type, Genotype PCs | — |
| PPM008096 | PSS007549| South Asian Ancestry| 7,555 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Processed meat intake | — | — | R²: 0.10977 [0.09671, 0.12282] Incremental R2 (full-covars): -0.00173 PGS R2 (no covariates): 1e-05 [-0.00014, 0.00017] | age, sex, UKB array type, Genotype PCs | — |
| PPM008097 | PSS007550| European Ancestry| 67,321 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Processed meat intake | — | — | R²: 0.08633 [0.08228, 0.09039] Incremental R2 (full-covars): 0.00281 PGS R2 (no covariates): 0.00275 [0.00196, 0.00354] | 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
|
|---|---|---|---|---|---|---|---|---|
| PSS007546 | — | — | 6,311 individuals | — | African unspecified | — | UKB | — |
| PSS007547 | — | — | 1,642 individuals | — | East Asian | — | UKB | — |
| PSS007548 | — | — | 24,852 individuals | — | European | non-white British ancestry | UKB | — |
| PSS007549 | — | — | 7,555 individuals | — | South Asian | — | UKB | — |
| PSS007550 | — | — | 67,321 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |