Discovery of novel heart rate-associated loci using the Exome Chip

Marten E. van den Berg, Helen R. Warren, Claudia P. Cabrera, Niek Verweij, Borbala Mifsud, Jeffrey Haessler, Nathan A. Bihlmeyer, Yi-Ping Fu, Stefan Weiss, Henry J. Lin, Niels Grarup, Ruifang Li-Gao, Giorgio Pistis, Nabi Shah, Jennifer A. Brody, Martina Mueller-Nurasyid, Honghuang Lin, Hao Mei, Albert V. Smith, Leo-Pekka LyytikainenLeanne M. Hall, Jessica van Setten, Stella Trompet, Bram P. Prins, Aaron Isaacs, Farid Radmanesh, Jonathan Marten, Aiman Entwistle, Jan A. Kors, Claudia T. Silva, Alvaro Alonso, Joshua C. Bis, Rudolf de Boer, Hugoline G. de Haan, Renee de Mutsert, George Dedoussis, Anna F. Dominiczak, Alex S. F. Doney, Patrick T. Ellinor, Ruben N. Eppinga, Stephan B. Felix, Xiuqing Guo, Yanick Hagemeijer, Torben Hansen, Tamara B. Harris, Susan R. Heckbert, Paul L. Huang, Shih-Jen Hwang, Mika Kahonen, Jorgen K. Kanters, Ivana Kolcic, Lenore J. Launer, Man Li, Jie Yao, Allan Linneberg, Simin Liu, Peter W. Macfarlane, Massimo Mangino, Andrew D. Morris, Antonella Mulas, Alison D. Murray, Christopher P. Nelson, Marco Orru, Sandosh Padmanabhan, Annette Peters, David J. Porteous, Neil Poulter, Bruce M. Psaty, Lihong Qi, Olli T. Raitakari, Fernando Rivadeneira, Carolina Roselli, Igor Rudan, Naveed Sattar, Peter Sever, Moritz F. Sinner, Elsayed Z. Soliman, Timothy D. Spector, Alice V. Stanton, Kathleen E. Stirrups, Kent D. Taylor, Martin D. Tobin, Andre Uitterlinden, Ilonca Vaartjes, Arno W. Hoes, Peter van der Meer, Uwe Voelker, Melanie Waldenberger, Zhijun Xie, Magdalena Zoledziewska, Andrew Tinker, Ozren Polasek, Jonathan Rosand, Yalda Jamshidi, Cornelia M. van Duijn, Eleftheria Zeggini, J. Wouter Jukema, Folkert W. Asselbergs, Nilesh J. Samani, Terho Lehtimaki, Vilmundur Gudnason, James Wilson, Steven A. Lubitz, Stefan Kaeaeb, Nona Sotoodehnia, Mark J. Caulfield, Colin N. A. Palmer, Serena Sanna, Dennis O. Mook-Kanamori, Panos Deloukas, Oluf Pedersen, Jerome I. Rotter, Marcus Doerr, Chris J. O'Donnell, Caroline Hayward, Dan E. Arking, Charles Kooperberg, Pim van der Harst, Mark Eijgelsheim, Bruno H. Stricker, Patricia B. Munroe*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review


Resting heart rate is a heritable trait, and an increase in heart rate is associated with increased mortality risk. Genome-wide association study analyses have found loci associated with resting heart rate, at the time of our study these loci explained 0.9% of the variation. This study aims to discover new genetic loci associated with heart rate from Exome Chip meta-analyses. Heart rate was measured from either elecrtrocardiograms or pulse recordings. We meta-analysed heart rate association results from 104 452 European-ancestry individuals from 30 cohorts, genotyped using the Exome Chip. Twenty-four variants were selected for follow-up in an independent dataset (UK Biobank, N = 134 251). Conditional and gene-based testing was undertaken, and variants were investigated with bioinformatics methods.

We discovered five novel heart rate loci, and one new independent low-frequency non-synonymous variant in an established heart rate locus (KIAA1755). Lead variants in four of the novel loci are non-synonymous variants in the genes C10orf71, DALDR3, TESK2 and SEC31B. The variant at SEC31B is significantly associated with SEC31B expression in heart and tibial nerve tissue. Further candidate genes were detected from long-range regulatory chromatin interactions in heart tissue (SCD, SLF2 and MAPK8). We observed significant enrichment in DNase I hypersensitive sites in fetal heart and lung. Moreover, enrichment was seen for the first time in human neuronal progenitor cells (derived from embryonic stem cells) and fetal muscle samples by including our novel variants.

Our findings advance the knowledge of the genetic architecture of heart rate, and indicate new candidate genes for follow-up functional studies.

Original languageEnglish
Pages (from-to)2346-2363
Number of pages18
JournalHuman Molecular Genetics
Issue number12
Publication statusPublished - 15 Jun 2017


  • GENE

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