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(Variants and weights)

Polygenic Score (PGS) ID: PGS000035

Predicted Trait

Reported Trait: Atrial fibrillation
Mapped Trait(s) (Experimental Factor Ontology (EFO) IDs): atrial fibrillation

Score Details

Name: PRS_AF

Original Genome Build: hg19
Number of Variants: 1,168

PGS Development Method: Pruning + Thresholding
PGS Development Details/Relevant Parameters: P < 10^-4; r2 < 0.5

Citation: Weng LC et al. Circulation (2017) | PGS Catalog Publication ID: PGP000022

Contributing Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry
GWAS Catalog: GCST004296
PubMed: 28416818
4,130 individuals East Asian
GWAS Catalog: GCST004296
PubMed: 28416818
5,875 individuals African American or Afro-Caribbean
GWAS Catalog: GCST004296
PubMed: 28416818
3,358 individuals Hispanic or Latin American
GWAS Catalog: GCST004296
PubMed: 28416818
118,755 individuals European
Score Development/Training
Detailed Phenotype Description (e.g. ICD/SNOMED codes used to identify cases) Sample Numbers Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
AF was defined as a reported history of AF or atrial flutter, or if an individual had undergone a cardioversion, pulmonary vein isolation procedure, atrial flutter ablation, atrioventricular node ablation, or received an ICD code of 427.3 (ICD-9) or I48 (ICD-10). 120,286 individuals
[ 2,987 cases, 117,299 controls]
47.3 % Male samples
European UKB

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.
PGS Performance Metric (PPM) ID PGS Catalog Sample Set (PSS) ID Performance Source Trait PGS Effect Sizes
(per SD change)
PGS Classification Metrics Other Metrics Covariates Included in PGS Model PGS Performance: Other Relevant Information
PPM000079 PSS000053 Weng LC et al. (2017) Reported Trait: Incident atrial fibrillation HR: 1.14 [1.11 - 1.16] Clinical risk (CHARGE-AF Score: height, weight, systolic and diastolic blood pressure, current smoking status, use of antihypertensive medication, diabetes mellitus, history of myocardial infarction and heart failure), age, sex, genotyping array, 1 PC of ancestry Unadjusted for Competing Risk of Death

Evaluated Samples

PGS Catalog Sample Set (PSS) ID Detailed Phenotype Description (e.g. ICD/SNOMED codes used to identify cases) Sample Numbers Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS000053 Participants were classified as having AF if an arrhythmia was present on an ECG obtained at a study visit or encounter with external clinicians, Holter monitoring, or noted in hospital records during a median 9.4 years of follow-up. 4,606 individuals
[ 580 cases, 4,026 controls]
45.89665653495441 % Male samples
Other FHS is principally composed of individuals of European ancestry FHS Samples were obtained from the following FHS cohorts: Original, Offspring, and Third Generation. Participants were eligible for inclusion if they were AF free at an average age of 55.