| Predicted Trait | |
| Reported Trait | Number of cigarettes previously smoked per day |
| Mapped Trait(s) | cigarettes per day measurement (EFO_0006525) |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI2887 |
| Score Construction | |
| PGS Name | GBE_INI2887 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 725 |
| 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% 64,064 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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|---|---|---|---|---|---|---|---|---|
| — | 64,064 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
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Other Metrics
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Covariates Included in the Model
|
PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|
| PPM008378 | PSS006871| African Ancestry| 553 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes previously smoked daily | — | — | R²: 0.05257 [0.04201, 0.06313] Incremental R2 (full-covars): -0.00029 PGS R2 (no covariates): 0.00089 [-0.00056, 0.00234] | age, sex, UKB array type, Genotype PCs | — |
| PPM008379 | PSS006872| East Asian Ancestry| 122 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes previously smoked daily | — | — | R²: 0.20745 [0.17324, 0.24166] Incremental R2 (full-covars): -0.00582 PGS R2 (no covariates): 0.00074 [-0.00184, 0.00332] | age, sex, UKB array type, Genotype PCs | — |
| PPM008380 | PSS006873| European Ancestry| 6,735 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes previously smoked daily | — | — | R²: 0.10992 [0.10259, 0.11725] Incremental R2 (full-covars): 0.00885 PGS R2 (no covariates): 0.00973 [0.0073, 0.01215] | age, sex, UKB array type, Genotype PCs | — |
| PPM008381 | PSS006874| South Asian Ancestry| 585 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes previously smoked daily | — | — | R²: 0.0678 [0.05705, 0.07855] Incremental R2 (full-covars): -0.00447 PGS R2 (no covariates): 0.00066 [-0.00048, 0.0018] | age, sex, UKB array type, Genotype PCs | — |
| PPM008382 | PSS006875| European Ancestry| 15,927 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: # of cigarettes previously smoked daily | — | — | R²: 0.0979 [0.09364, 0.10216] Incremental R2 (full-covars): 0.0054 PGS R2 (no covariates): 0.00613 [0.00496, 0.00731] | 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
|
|---|---|---|---|---|---|---|---|---|
| PSS006871 | — | — | 553 individuals | — | African unspecified | — | UKB | — |
| PSS006872 | — | — | 122 individuals | — | East Asian | — | UKB | — |
| PSS006873 | — | — | 6,735 individuals | — | European | non-white British ancestry | UKB | — |
| PSS006874 | — | — | 585 individuals | — | South Asian | — | UKB | — |
| PSS006875 | — | — | 15,927 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |