PGS Publication: PGP000236

Publication Information (EuropePMC)
Title Multi-ancestry GWAS of the electrocardiographic PR interval identifies 202 loci underlying cardiac conduction.
PubMed ID 32439900(Europe PMC)
doi 10.1038/s41467-020-15706-x
Publication Date May 21, 2020
Journal Nat Commun
Author(s) Ntalla I, Weng LC, Cartwright JH, Hall AW, Sveinbjornsson G, Tucker NR, Choi SH, Chaffin MD, Roselli C, Barnes MR, Mifsud B, Warren HR, Hayward C, Marten J, Cranley JJ, Concas MP, Gasparini P, Boutin T, Kolcic I, Polasek O, Rudan I, Araujo NM, Lima-Costa MF, Ribeiro ALP, Souza RP, Tarazona-Santos E, Giedraitis V, Ingelsson E, Mahajan A, Morris AP, Del Greco M F, Foco L, Gögele M, Hicks AA, Cook JP, Lind L, Lindgren CM, Sundström J, Nelson CP, Riaz MB, Samani NJ, Sinagra G, Ulivi S, Kähönen M, Mishra PP, Mononen N, Nikus K, Caulfield MJ, Dominiczak A, Padmanabhan S, Montasser ME, O'Connell JR, Ryan K, Shuldiner AR, Aeschbacher S, Conen D, Risch L, Thériault S, Hutri-Kähönen N, Lehtimäki T, Lyytikäinen LP, Raitakari OT, Barnes CLK, Campbell H, Joshi PK, Wilson JF, Isaacs A, Kors JA, van Duijn CM, Huang PL, Gudnason V, Harris TB, Launer LJ, Smith AV, Bottinger EP, Loos RJF, Nadkarni GN, Preuss MH, Correa A, Mei H, Wilson J, Meitinger T, Müller-Nurasyid M, Peters A, Waldenberger M, Mangino M, Spector TD, Rienstra M, van de Vegte YJ, van der Harst P, Verweij N, Kääb S, Schramm K, Sinner MF, Strauch K, Cutler MJ, Fatkin D, London B, Olesen M, Roden DM, Benjamin Shoemaker M, Gustav Smith J, Biggs ML, Bis JC, Brody JA, Psaty BM, Rice K, Sotoodehnia N, De Grandi A, Fuchsberger C, Pattaro C, Pramstaller PP, Ford I, Wouter Jukema J, Macfarlane PW, Trompet S, Dörr M, Felix SB, Völker U, Weiss S, Havulinna AS, Jula A, Sääksjärvi K, Salomaa V, Guo X, Heckbert SR, Lin HJ, Rotter JI, Taylor KD, Yao J, de Mutsert R, Maan AC, Mook-Kanamori DO, Noordam R, Cucca F, Ding J, Lakatta EG, Qian Y, Tarasov KV, Levy D, Lin H, Newton-Cheh CH, Lunetta KL, Murray AD, Porteous DJ, Smith BH, Stricker BH, Uitterlinden A, van den Berg ME, Haessler J, Jackson RD, Kooperberg C, Peters U, Reiner AP, Whitsel EA, Alonso A, Arking DE, Boerwinkle E, Ehret GB, Soliman EZ, Avery CL, Gogarten SM, Kerr KF, Laurie CC, Seyerle AA, Stilp A, Assa S, Abdullah Said M, Yldau van der Ende M, Lambiase PD, Orini M, Ramirez J, Van Duijvenboden S, Arnar DO, Gudbjartsson DF, Holm H, Sulem P, Thorleifsson G, Thorolfsdottir RB, Thorsteinsdottir U, Benjamin EJ, Tinker A, Stefansson K, Ellinor PT, Jamshidi Y, Lubitz SA, Munroe PB.
Released in PGS Catalog: Sept. 17, 2021

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
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Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

PGS Developed By This Publication

Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS000904
(PRS582_PR)
PGP000236 |
Ntalla I et al. Nat Commun (2020)
PR interval PR interval 582
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000904/ScoringFiles/PGS000904.txt.gz
PGS000905
(PRS743_PR)
PGP000236 |
Ntalla I et al. Nat Commun (2020)
PR interval PR interval 743
-
http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000905/ScoringFiles/PGS000905.txt.gz

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)
Evaluated Score 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
PPM002666 PGS000904
(PRS582_PR)
PSS001175|
European Ancestry|
309,269 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Atrial fibrillation OR: 0.95
β: -0.047 (0.009)
Baseline age, sex, genotyping array, trait-related principal components Only 581 SNPs from the 582 SNP PRS were utilised. 1 SNP was not included due to low imputation quality.
PPM002667 PGS000904
(PRS582_PR)
PSS001178|
European Ancestry|
290,252 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Distal conduction disease OR: 1.11
β: 0.103 (0.019)
Baseline age, sex, genotyping array, trait-related principal components Only 581 SNPs from the 582 SNP PRS were utilised. 1 SNP was not included due to low imputation quality.
PPM002668 PGS000904
(PRS582_PR)
PSS001176|
European Ancestry|
309,041 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Atrioventricular preexcitation OR: 0.85
β: -0.168 (0.057)
Baseline age, sex, genotyping array, trait-related principal components Only 581 SNPs from the 582 SNP PRS were utilised. 1 SNP was not included due to low imputation quality.
PPM002669 PGS000904
(PRS582_PR)
PSS001179|
European Ancestry|
309,241 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Implantable cardioverter defibrillator OR: 1.09
β: 0.086 (0.04)
Baseline age, sex, genotyping array, trait-related principal components Only 581 SNPs from the 582 SNP PRS were utilised. 1 SNP was not included due to low imputation quality.
PPM002670 PGS000904
(PRS582_PR)
PSS001180|
European Ancestry|
309,246 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Mitral valve prolapse OR: 1.1
β: 0.093 (0.044)
Baseline age, sex, genotyping array, trait-related principal components Only 581 SNPs from the 582 SNP PRS were utilised. 1 SNP was not included due to low imputation quality.
PPM002671 PGS000904
(PRS582_PR)
PSS001181|
European Ancestry|
305,471 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Non-ischemic cardiomyopathy OR: 0.95
β: -0.051 (0.024)
Baseline age, sex, genotyping array, trait-related principal components Only 581 SNPs from the 582 SNP PRS were utilised. 1 SNP was not included due to low imputation quality.
PPM002672 PGS000904
(PRS582_PR)
PSS001182|
European Ancestry|
309,270 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Pacemaker OR: 1.06
β: 0.062 (0.016)
Baseline age, sex, genotyping array, trait-related principal components Only 581 SNPs from the 582 SNP PRS were utilised. 1 SNP was not included due to low imputation quality.
PPM002673 PGS000904
(PRS582_PR)
PSS001183|
European Ancestry|
309,255 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Valve disease OR: 1.03
β: 0.03 (0.013)
Baseline age, sex, genotyping array, trait-related principal components Only 581 SNPs from the 582 SNP PRS were utilised. 1 SNP was not included due to low imputation quality.
PPM002674 PGS000905
(PRS743_PR)
PSS001175|
European Ancestry|
309,269 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Atrial fibrillation OR: 0.94
β: -0.058 (0.009)
Baseline age, sex, genotyping array, trait-related principal components
PPM002675 PGS000905
(PRS743_PR)
PSS001178|
European Ancestry|
290,252 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Distal conduction disease OR: 1.11
β: 0.105 (0.019)
Baseline age, sex, genotyping array, trait-related principal components
PPM002676 PGS000905
(PRS743_PR)
PSS001176|
European Ancestry|
309,041 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Atrioventricular preexcitation OR: 0.83
β: -0.191 (0.057)
Baseline age, sex, genotyping array, trait-related principal components
PPM002677 PGS000905
(PRS743_PR)
PSS001177|
European Ancestry|
309,246 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Coronary artery disease OR: 0.99
β: -0.014 (0.007)
Baseline age, sex, genotyping array, trait-related principal components
PPM002678 PGS000905
(PRS743_PR)
PSS001182|
European Ancestry|
309,270 individuals
PGP000236 |
Ntalla I et al. Nat Commun (2020)
Reported Trait: Pacemaker OR: 1.06
β: 0.056 (0.016)
Baseline age, sex, genotyping array, trait-related principal components

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
PSS001175 Cases were individuals with atrial fibrillation. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 14,812 cases
  • , 294,457 controls
]
European UKB
PSS001176 Cases were individuals with atrioventricular preexcitation. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 307 cases
  • , 308,734 controls
]
European UKB
PSS001177 Cases were individuals with congential artery disease. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 27,072 cases
  • , 282,174 controls
]
European UKB
PSS001178 Cases were individuals with distal conduction disease. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 2,789 cases
  • , 287,463 controls
]
European UKB
PSS001179 Cases were individuals with implantable cardioverter defibrillators. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 633 cases
  • , 308,608 controls
]
European UKB
PSS001180 Cases were individuals with mitral valve prolapse. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 529 cases
  • , 308,717 controls
]
European UKB
PSS001181 Cases were individuals with non-ischemic cardiomyopathy. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 1,703 cases
  • , 303,768 controls
]
European UKB
PSS001182 Cases were individuals with a pacemaker. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 3,975 cases
  • , 305,295 controls
]
European UKB
PSS001183 Cases were individuals with valve disease. Disease status was ascertained based on data from baseline interviews, hospital diagnosis codes (ICD-9 and ICD-10), cause of death codes (ICD-10), and operation codes. Details of individual selections and disease definitions are described in Supplementary Data 23.
[
  • 6,244 cases
  • , 303,011 controls
]
European UKB