PGS Catalog - PGS001841 / Atrial fibrillation and flutter (Polygenic Score)

Polygenic Score (PGS) ID: PGS001841

Predicted Trait
Reported Trait	Atrial fibrillation and flutter
Mapped Trait(s)	atrial fibrillation (EFO_0000275) atrial flutter (EFO_0003911)
Additional Trait Information	circulatory system

Released in PGS Catalog: Jan. 10, 2022

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Score Details

Score Construction
PGS Name	portability-PLR_427.2
Development Method
Name	Penalized regression (bigstatsr)
Parameters	HapMap3 variants
Variants
Original Genome Build	GRCh37
Number of Variants	3,980
Effect Weight Type	beta

PGS Source
PGS Catalog Publication (PGP) ID	PGP000263
Citation (link to publication)	Privé F et al. Am J Hum Genet (2022)

Ancestry Distribution
Score Development/Training	European: 100% 391,124 individuals (100%)
PGS Evaluation	European: 37.5% African: 25% East Asian: 12.5% Greater Middle Eastern: 12.5% South Asian: 12.5% 8 Sample Sets

Development Samples

Score Development/Training

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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
—	391,124 individuals	European	UKB	—	—	—	UK (+ Ireland)	—

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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.

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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
PPM009618	PSS009313\| European Ancestry\| 19,230 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Atrial fibrillation and flutter	—	—	Partial Correlation (partial-r): 0.1026 [0.0885, 0.1165]	sex, age, birth date, deprivation index, 16 PCs	—
PPM009619	PSS009087\| European Ancestry\| 3,980 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Atrial fibrillation and flutter	—	—	Partial Correlation (partial-r): 0.0701 [0.039, 0.101]	sex, age, birth date, deprivation index, 16 PCs	—
PPM009620	PSS008641\| European Ancestry\| 6,397 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Atrial fibrillation and flutter	—	—	Partial Correlation (partial-r): 0.0741 [0.0496, 0.0984]	sex, age, birth date, deprivation index, 16 PCs	—
PPM009621	PSS008415\| Greater Middle Eastern Ancestry\| 1,151 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Atrial fibrillation and flutter	—	—	Partial Correlation (partial-r): 0.091 [0.0329, 0.1485]	sex, age, birth date, deprivation index, 16 PCs	—
PPM009622	PSS008195\| South Asian Ancestry\| 6,001 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Atrial fibrillation and flutter	—	—	Partial Correlation (partial-r): 0.0436 [0.0182, 0.0688]	sex, age, birth date, deprivation index, 16 PCs	—
PPM009623	PSS007977\| East Asian Ancestry\| 1,768 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Atrial fibrillation and flutter	—	—	Partial Correlation (partial-r): 0.0317 [-0.0153, 0.0784]	sex, age, birth date, deprivation index, 16 PCs	—
PPM009624	PSS007760\| African Ancestry\| 2,381 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Atrial fibrillation and flutter	—	—	Partial Correlation (partial-r): 0.0464 [0.0061, 0.0866]	sex, age, birth date, deprivation index, 16 PCs	—
PPM009625	PSS008864\| African Ancestry\| 3,769 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Atrial fibrillation and flutter	—	—	Partial Correlation (partial-r): 0.0414 [0.0094, 0.0733]	sex, age, birth date, deprivation index, 16 PCs	—

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Evaluated Samples

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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
PSS007760	—	—	2,381 individuals	—	African American or Afro-Caribbean	Carribean	UKB	—
PSS007977	—	—	1,768 individuals	—	East Asian	China (East Asia)	UKB	—
PSS008195	—	—	6,001 individuals	—	South Asian	India (South Asia)	UKB	—
PSS008415	—	—	1,151 individuals	—	Greater Middle Eastern (Middle Eastern, North African or Persian)	Iran (Middle East)	UKB	—
PSS008641	—	—	6,397 individuals	—	European	Italy (South Europe)	UKB	—
PSS008864	—	—	3,769 individuals	—	African unspecified	Nigeria (West Africa)	UKB	—
PSS009087	—	—	3,980 individuals	—	European	Poland (NE Europe)	UKB	—
PSS009313	—	—	19,230 individuals	—	European	UK (+ Ireland)	UKB	—

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