Polygenic Score (PGS) ID: PGS005060

Predicted Trait
Reported Trait Atrial fibrillation (PheCode 427.21)
Mapped Trait(s) atrial fibrillation (EFO_0000275)
Released in PGS Catalog: Oct. 8, 2024
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Score Details

Score Construction
PGS Name Phe_427_21_ldpred_AFRss_afrld
Development Method
Name ldpred
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,286,612
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000679
Citation (link to publication) Gunn S et al. HGG Adv (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
Not Reported: 50.3%
European: 36%
African: 9.6%
Hispanic or Latin American: 4.1%
1,235,246 individuals (100%)
PGS Evaluation
African: 33.3%
Hispanic or Latin American: 33.3%
European: 33.3%
3 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
—
[
  • 8,880 cases
  • , 109,774 controls
]
 African American or Afro-Caribbean MVP
—
[
  • 72,336 cases
  • , 372,363 controls
]
 European MVP
—
[
  • 3,297 cases
  • , 46,999 controls
]
 Hispanic or Latin American MVP
—
[
  • 84,951 cases
  • , 536,646 controls
]
 Not reported MVP

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 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
PPM021938 PSS011810|
Hispanic or Latin American Ancestry|
6,775 individuals
 PGP000679 |
Gunn S et al. HGG Adv (2024)
 Reported Trait: Atrial fibrillation OR: 1.231 [1.08, 1.4] C-index: 0.81914 — age, sex, 20 PCs —
PPM021944 PSS011820|
European Ancestry|
25,409 individuals
 PGP000679 |
Gunn S et al. HGG Adv (2024)
 Reported Trait: Atrial fibrillation OR: 1.208 [1.16, 1.26] C-index: 0.80875 — age, sex, 20 PCs —
PPM021950 PSS011800|
African Ancestry|
8,952 individuals
 PGP000679 |
Gunn S et al. HGG Adv (2024)
 Reported Trait: Atrial fibrillation OR: 1.246 [1.11, 1.39] C-index: 0.74621 — age, sex, 20 PCs —

Evaluated Samples

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
PSS011810 — —
[
  • 309 cases
  • , 6,466 controls
]
 — Hispanic or Latin American — AllofUs —
PSS011820 — —
[
  • 3,038 cases
  • , 22,371 controls
]
 — European — AllofUs —
PSS011800 — —
[
  • 473 cases
  • , 8,479 controls
]
 — African American or Afro-Caribbean — AllofUs —