Predicted Trait | |
Reported Trait | Atrial fibrillation |
Mapped Trait(s) | atrial fibrillation (EFO_0000275) |
Score Construction | |
PGS Name | PRS_AF |
Development Method | |
Name | Pruning and Thresholding (P+T) |
Parameters | P < 10^-4; r2 < 0.5 |
Variants | |
Original Genome Build | hg19 |
Number of Variants | 1,168 |
Effect Weight Type | NR |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000022 |
Citation (link to publication) | Weng LC et al. Circulation (2017) |
Study Identifiers | Sample Numbers | Sample Ancestry | Cohort(s) |
---|---|---|---|
GWAS Catalog: GCST004296 Europe PMC: 28416818 |
5,875 individuals | African American or Afro-Caribbean | NR |
GWAS Catalog: GCST004296 Europe PMC: 28416818 |
4,130 individuals | East Asian | NR |
GWAS Catalog: GCST004296 Europe PMC: 28416818 |
118,755 individuals | European | NR |
GWAS Catalog: GCST004296 Europe PMC: 28416818 |
3,358 individuals | Hispanic or Latin American | NR |
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 |
---|---|---|---|---|---|---|---|---|
— | [ ,
47.3 % Male samples |
European | UKB | 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). | — | — | — | — |
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 |
---|---|---|---|---|---|---|---|---|
PPM000079 | PSS000053| Multi-ancestry (including European)| 4,606 individuals |
PGP000022 | Weng LC et al. Circulation (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 |
PPM020778 | PSS011403| Multi-ancestry (including European)| 3,335 individuals |
PGP000586 | Khurshid S et al. Circ Genom Precis Med (2021) |Ext. |
Reported Trait: Incident atrial fibrillation | HR: 1.49 [1.3, 1.71] | C-index: 0.617 [0.574, 0.66] | R²: 0.016 [0.004, 0.027] | — | — |
PPM020775 | PSS011406| Multi-ancestry (including European)| 473,681 individuals |
PGP000586 | Khurshid S et al. Circ Genom Precis Med (2021) |Ext. |
Reported Trait: Incident atrial fibrillation | HR: 1.34 [1.31, 1.37] | C-index: 0.584 [0.577, 0.59] | R²: 0.004 [0.004, 0.005] | — | — |
PPM020776 | PSS011404| European Ancestry| 10,560 individuals |
PGP000586 | Khurshid S et al. Circ Genom Precis Med (2021) |Ext. |
Reported Trait: Incident atrial fibrillation | HR: 1.48 [1.31, 1.66] | C-index: 0.615 [0.579, 0.65] | R²: 0.011 [0.004, 0.018] | — | — |
PPM020777 | PSS011405| Multi-ancestry (including European)| 55,517 individuals |
PGP000586 | Khurshid S et al. Circ Genom Precis Med (2021) |Ext. |
Reported Trait: Incident atrial fibrillation | HR: 1.28 [1.21, 1.35] | C-index: 0.569 [0.554, 0.584] | R²: 0.003 [0.002, 0.005] | — | — |
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 |
---|---|---|---|---|---|---|---|---|
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. | — | [ ,
45.9 % Male samples |
— | European, NR | 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. |
PSS011403 | Cases were individuals with atrial fibrillation (AF). Individuals were classified as having AF if the arrhythmia was present on an ECG obtained at a study visit or encounter with external clinicians, Holter monitoring, or noted in hospital records. Study investigators reviewed all available records to determine dates of AF. Two physicians adjudicated first-detected AF events. | — | [ ,
44.6 % Male samples |
Mean = 59.4 years Sd = 15.5 years |
European, Not reported | — | FHS | — |
PSS011404 | Cases were individuals with atrial fibrillation (AF). Cases were identified using ICD-10 code: I48 and ICD-9 code: 427.3. | — | [ ,
47.7 % Male samples |
Mean = 57.0 years Sd = 7.4 years |
European | — | FINRISK | — |
PSS011405 | Cases were individuals with atrial fibrillation (AF). AF was defined as a clinically reported finding of AF or atrial flutter from a 12- lead ECG or a diagnosis of AF or atrial flutter applied to two or more inpatient or outpatient encounters or on the patient problem list from the institutional electronic health record. Diagnosis codes used to define AF included ICD10: I48.0, I48.1, I48.2, I48.3 and I48.91); ICD9: 427.31; and 92 separate internal codes. | — | [ ,
34.2 % Male samples |
Mean = 47.3 years Sd = 15.2 years |
European, Not reported | — | MyCode | — |
PSS011406 | Cases were individuals with atrial fibrillation (AF). Cases were identified using using self-report, ICD 9/10 codes, or cause of death records and where available, codes for specific AF-related procedures (e.g., percutaneous transluminal ablation of pulmonary vein) were also utilized in the AF definition. The complete list of clinical factor definitions is shown in supplemental Table I. | — | [ ,
45.3 % Male samples |
Mean = 56.9 years Sd = 8.1 years |
European, Not reported | — | UKB | Possible sample overlap between this dataset and the dataset used to develop/train PGS000035. |