| Predicted Trait | |
| Reported Trait | Atrial fibrillation |
| Mapped Trait(s) | atrial fibrillation (EFO_0000275) |
| Score Construction | |
| PGS Name | GPS_AF |
| Variants | |
| Original Genome Build | hg19 |
| Number of Variants | 6,730,541 |
| Development Method | |
| Name | LDPred |
| Parameters | ρ = 0.003; LD panel = 503 1000G Europeans |
| PGS Source | |
| PGS Catalog Publication (PGP) ID | PGP000006 |
| Citation (link to publication) | Khera AV et al. Nat Genet (2018) |
| Study Identifiers | Sample Numbers | Sample Ancestry |
|---|---|---|
| GWAS Catalog: GCST004295 EuropePMC: 28416818 |
5,875 individuals | African American or Afro-Caribbean |
| GWAS Catalog: GCST004295 EuropePMC: 28416818 |
4,130 individuals | East Asian |
| GWAS Catalog: GCST004295 EuropePMC: 28416818 |
118,755 individuals | European |
| GWAS Catalog: GCST004295 EuropePMC: 28416818 |
3,358 individuals | Hispanic or Latin American |
| Detailed Phenotype Description | Participant Follow-up Time | Sample Numbers | Age of Study Participants | Sample Ancestry | Additional Ancestry Description | Cohort(s) | Additional Sample/Cohort Information |
|---|---|---|---|---|---|---|---|
| Atrial fibrillation ascertainment was based on self-report of atrial fibrillation, atrial flutter, or cardioversion in an interview with a trained nurse, an ICD-9 code of 427.3 or ICD-10 code of I48.X in hospitalization records, or a history of a percutaneous ablation or cardioversion based on the OPCS-4 coded procedure (K57.1, K62.1, K62.2, K62.3, or K 62.4), as performed previously | — | [
|
— | European | — | UKB | UKB Phase 1 |
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 ID (PPM ID) |
PGS Sample Set ID (PSS ID) |
Performance Source | Trait |
PGS Effect Sizes (per SD change) |
PGS Classification Metrics | Other Metrics | Covariates Included in the Model | PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|
| PPM000025 | PSS000013 | PGP000006 Khera AV et al. (2018) |
Reported Trait: Atrial fibrillation | — | AUROC: 0.77[0.76, 0.77] | Nagelkerke’s R2 (estimate of variance explained by the PGS after covariate adjustment): 0.029 | age; sex; Ancestry PC 1-4; genotyping chip | — |
| PPM000385 | PSS000217 | PGP000057 Homburger JR et al. (2019) Ext. |
Reported Trait: Atrial Fibrillation (personal history) | OR: 1.277[1.12, 1.46] | AUROC: 0.78 | — | age, sex | — |
| PPM000389 | PSS000217 | PGP000057 Homburger JR et al. (2019) Ext. |
Reported Trait: Atrial Fibrillation (personal history) | — | AUROC: 0.57 | — | — | — |
|
PGS Sample Set ID (PSS ID) |
Detailed Phenotype Description | Participant Follow-up Time | Sample Numbers | Age of Study Participants | Sample Ancestry | Additional Ancestry Description | Cohort(s) | Additional Sample/Cohort Information |
|---|---|---|---|---|---|---|---|---|
| PSS000013 | Atrial fibrillation ascertainment was based on self-report of atrial fibrillation, atrial flutter, or cardioversion in an interview with a trained nurse, an ICD-9 code of 427.3 or ICD-10 code of I48.X in hospitalization records, or a history of a percutaneous ablation or cardioversion based on the OPCS-4 coded procedure (K57.1, K62.1, K62.2, K62.3, or K 62.4), as performed previously | — | [
|
— | European | — | UKB | UKB Phase 2 |
| PSS000217 | Phenotypic information was self-reported by the individual through an online, interactive health history tool | — | [ ,
17.1 % Male samples |
— | European | — | CG | Samples are individuals whose healthcare provider had ordered a Color Genomics multi-gene panel test |