Polygenic Score (PGS) ID: PGS003061

Predicted Trait
Reported Trait Smoking status
Mapped Trait(s) smoking status measurement (EFO_0006527)
Additional Trait Information SmokingInitiation; Binary
Released in PGS Catalog: Nov. 23, 2022
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Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name ExPRSweb_Smoking_SmokingInitiation_PLINK_MGI_20211120
Development Method
Name PLINK
Parameters LD Clumping through Plink1.9 & P-value threshold <=2.51e-03
Variants
Original Genome Build GRCh37
Number of Variants 15,848
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000393
Citation (link to publication) Ma Y et al. Am J Hum Genet (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
1,232,091 individuals (100%)
Score Development/Training
European: 100%
23,331 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
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Study Identifiers
Sample Numbers
Sample Ancestry
Cohort(s)
GWAS Catalog: GCST007474
1,232,091 individualsEuropeanNR
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Score Development/Training
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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
—
[
  • 11,375 cases
  • , 11,956 controls
]
EuropeanMGInever/past/current smoking status was recoded to never/ever responses.; Binary————
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Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

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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
PPM015986PSS010013|
European Ancestry|
23,332 individuals
PGP000393 |
Ma Y et al. Am J Hum Genet (2022)
Reported Trait: Smoking StatusOR: 1.315 [1.28, 1.351]
β: 0.274 (0.0138)		AUROC: 0.576 [0.568, 0.583]—SEX,AGE,Batch,PC1,PC2,PC3,PC4—
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Evaluated Samples

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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
PSS010013never/past/current smoking status was recoded to never/ever responses.; Binary—
[
  • 11,434 cases
  • , 11,898 controls
]
—European—MGI—
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