| Predicted Trait | |
| Reported Trait | Number of cigarettes currently smoked daily (current cigarette smokers) |
| Mapped Trait(s) | cigarettes per day measurement (EFO_0006525) |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI3456 |
| Score Construction | |
| PGS Name | GBE_INI3456 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 9 |
| 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% 18,793 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
|
Cohort(s)
|
Phenotype Definitions & Methods
|
Age of Study Participants
|
Participant Follow-up Time
|
Additional Ancestry Description
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Additional Sample/Cohort Information
|
|---|---|---|---|---|---|---|---|---|
| — | 18,793 individuals | European | UKB | — | — | — | white British ancestry | Training + validation cohort (train_val) |
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 |
|---|---|---|---|---|---|---|---|---|
| PPM007085 | PSS007246| African Ancestry| 438 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) | — | — | R²: 0.01822 [0.01178, 0.02466] Incremental R2 (full-covars): -0.00395 PGS R2 (no covariates): 0.00404 [0.00097, 0.00712] | age, sex, UKB array type, Genotype PCs | — |
| PPM007086 | PSS007247| East Asian Ancestry| 86 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) | — | — | R²: 0.1229 [0.09376, 0.15204] Incremental R2 (full-covars): 0.00955 PGS R2 (no covariates): 0.02937 [0.01361, 0.04513] | age, sex, UKB array type, Genotype PCs | — |
| PPM007087 | PSS007248| European Ancestry| 2,329 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) | — | — | R²: 0.09619 [0.08923, 0.10315] Incremental R2 (full-covars): 0.00371 PGS R2 (no covariates): 0.00361 [0.00212, 0.0051] | age, sex, UKB array type, Genotype PCs | — |
| PPM007088 | PSS007249| South Asian Ancestry| 411 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) | — | — | R²: 0.04868 [0.03939, 0.05797] Incremental R2 (full-covars): 0.01303 PGS R2 (no covariates): 0.01795 [0.01212, 0.02377] | age, sex, UKB array type, Genotype PCs | — |
| PPM007089 | PSS007250| European Ancestry| 4,562 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes currently smoked daily (current cigarette smokers) | — | — | R²: 0.07868 [0.07478, 0.08258] Incremental R2 (full-covars): 0.00371 PGS R2 (no covariates): 0.00532 [0.00423, 0.00642] | 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
|
|---|---|---|---|---|---|---|---|---|
| PSS007246 | — | — | 438 individuals | — | African unspecified | — | UKB | — |
| PSS007247 | — | — | 86 individuals | — | East Asian | — | UKB | — |
| PSS007248 | — | — | 2,329 individuals | — | European | non-white British ancestry | UKB | — |
| PSS007249 | — | — | 411 individuals | — | South Asian | — | UKB | — |
| PSS007250 | — | — | 4,562 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |