Predicted Trait | |
Reported Trait | Atrial fibrillation |
Mapped Trait(s) | atrial fibrillation (EFO_0000275) |
Score Construction | |
PGS Name | AF_PGS |
Development Method | |
Name | LD thinning |
Parameters | UKB was used for thinning (bi-allelic SNPs, MAF > 1%, INFO > 0.4, excluding palindromic SNPs); r2 threshold = 0.9 |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 2,210,336 |
Effect Weight Type | NR |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000137 |
Citation (link to publication) | Ritchie SC et al. Nat Metab (2021) |
Ancestry Distribution | |
Source of Variant Associations (GWAS) | European: 100% 1,030,836 individuals (100%) |
PGS Evaluation |
Study Identifiers | Sample Numbers | Sample Ancestry | Cohort(s) |
---|---|---|---|
GWAS Catalog: GCST006414 Europe PMC: 30061737 |
1,030,836 individuals | European | 6 cohorts
|
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 |
---|---|---|---|---|---|---|---|---|
PPM001668 | PSS000867| European Ancestry| 3,087 individuals |
PGP000137 | Ritchie SC et al. Nat Metab (2021) |
Reported Trait: Incident atrial fibrillation | HR: 1.72 [1.2, 2.47] | — | — | age, sex, 10 genetic PCs | — |
PPM022657 | PSS012048| Multi-ancestry (excluding European)| 14,259 individuals |
PGP000737 | Qafoud F et al. J Clin Med (2024) |Ext. |
Reported Trait: Atrial fibrillation | OR: 1.43 [1.03, 1.97] | AUROC: 0.55 | — | sex, age, and 5 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 |
---|---|---|---|---|---|---|---|---|
PSS012048 | — | — | 655 individuals | — | African unspecified | — | NR | — |
PSS012048 | — | — | 6,816 individuals | — | Greater Middle Eastern (Middle Eastern, North African or Persian) (Arabs) |
— | QBB | — |
PSS012048 | — | — | 2,620 individuals | — | South Asian | — | NR | — |
PSS000867 | CALIBER rule-based phenotyping algorithms (https://www.caliberresearch.org/portal). ICD-10: I48 | Median = 6.9 years | [ ,
51.0 % Male samples |
Median = 44.0 years IQR = [30.5, 54.7] years |
European | — | INTERVAL | — |
PSS012048 | — | — | 4,168 individuals | — | Not reported | — | NR | — |