volume 590 issue 7845 pages 290-299

Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program

Daniel Taliun 1, 2
Daniel N Harris 3, 4, 5
Michael D. Kessler 6, 7
Jedidiah Carlson 8, 9
Zachary A Szpiech 10
Raúl Torres 1, 2
Sarah A. Gagliano Taliun 11
André Corvelo 12
Stephanie M. Gogarten 1, 2
Hyun Min Kang 13
Achilleas N. Pitsillides 1, 2
Jonathon LeFaive 7
Seung-been Lee 12
Xiaowen Tian 14
Brian L Browning 1, 2
Sayantan Das 11
Anne-Katrin Emde 11
Wayne E. Clarke 3, 4, 5
Douglas P Loesch 3, 4, 5
Amol Shetty 1, 2
Thomas W Blackwell 1, 2
Albert B. Smith 12
Quenna Wong 15
Xiaoming Liu 12
Matthew P. Conomos 16
Dean M Bobo 17
François Aguet 18
Christine Albert 19
Alvaro Alonso 17
Kristin G. Ardlie 20
Dan E Arking 21
Stella Aslibekyan 22
Paul L. Auer 23
John Barnard 24, 25
R. Graham Barr 26
Lucas Barwick 27
LEWIS C. BECKER 28
Rebecca L Beer 29, 30, 31
Emelia J. Benjamin 32
Lawrence F. Bielak 33, 34
John Blangero 1, 2
Michael Boehnke 35
Donald W Bowden 36, 37
Jennifer A. Brody 38, 39
Esteban G. Burchard 40, 41
Brian E. Cade 42, 43
James F. Casella 44
Brandon Chalazan 45, 46
Daniel I. Chasman 47
Yii-Der Ida Chen 48
Michael H. Cho 17
Seung-Hoan Choi 49, 50, 51
Mina K. Chung 52
Clary B. Clish 53, 54, 55
Adolfo Correa 33, 34
Joanne E Curran 56, 57
Brian Custer 58
Dawood Darbar 59
Michelle Daya 60
Mariza de Andrade 48
Dawn L. DeMeo 61, 62
Susan K. Dutcher 63
Patrick T Ellinor 12
Leslie S Emery 39
Celeste Eng 64, 65, 66
Diane Fatkin 67
Tasha Fingerlin 68
Lukas Forer 69
Myriam Fornage 70
Nora Franceschini 1, 2, 68, 71
Christian Fuchsberger 72
Stephanie M. Fullerton 11
Soren Germer 73, 74, 75
Mark T. Gladwin 76, 77
Daniel J. Gottlieb 47
Xiuqing Guo 53
Michael E Hall 78, 79
He Jiang 31, 80
Nancy L. Heard-Costa 37, 81
Susan R. Heckbert 82
Marguerite R Irvin 36, 83
Jill M. Johnsen 31, 84
Andrew D. Johnson 85
Robert Kaplan 32
Sharon L. R. Kardia 78
Tanika Kelly 86, 87, 88
Shannon Kelly 16
Eimear E. Kenny 17, 40, 89, 90
Douglas P. Kiel 1, 2
Robert Klemmer 36, 83
Barbara A. Konkle 91
Charles Kooperberg 92, 93
Anna Köttgen 94
Leslie A Lange 40, 41, 48, 95
Jessica Lasky-Su 29, 31, 84
Daniel Levy 96
Xihong Lin 1, 2
Keng-Han Lin 13
Chunyu Liu 97, 98
Ruth J.F. Loos 99
Lori Garman 100
Robert Gerszten 18
Steven A. Lubitz 13
Kathryn L. Lunetta 39
Angel C Y Mak 101, 102
Ani Manichaikul 40, 103, 104
Alisa K Manning 105
Rasika A. Mathias 106
David D McManus 107, 108, 109
Stephen T. McGarvey 110
James B. Meigs 111
Deborah A. Meyers 28
Julie L Mikulla 28
Mollie A. Minear 4, 5, 112
Braxton D Mitchell 113, 114
Sanghamitra Mohanty 4, 5
May E. Montasser 99
Courtney Montgomery 115
Alanna C. Morrison 29
Joanne M. Murabito 113
Andrea Natale 40, 63, 116, 117
Pradeep Natarajan 12
Sarah C Nelson 70
Kari E. North 4, 5
Jeffrey R O'Connell 35
Nicholette D. Palmer 118
Nathan Pankratz 13
Gina M. Peloso 32
Patricia A. Peyser 1, 2
Jacob Pleiness 119
Wendy S. Post 36, 37, 81, 120, 121
Bruce M. Psaty 122
D C Rao 40, 41
Susan Redline 81, 91
Alexander P Reiner 123
Dan Roden 47
Jerome I. Rotter 124
Ingo Ruczinski 13
Chloé Sarnowski 68
Sebastian Schoenherr 125
David A. Schwartz 126, 127, 128
Jeong-Sun Seo 31, 129
Sudha Seshadri 130, 131
Vivien A. Sheehan 132
Wayne H. Sheu 123
M. Benjamin Shoemaker 81, 121, 133
Nicholas L Smith 32, 134
Jennifer A Smith 37
Nona Sotoodehnia 12
Adrienne M. Stilp 135
Weihong Tang 47
Kent D. Taylor 136
Marilyn Telen 12
Timothy A. Thornton 137
Russell P Tracy 138
David J Van Den Berg 29, 31
Ramachandran S Vasan 139
Karine A. Viaud-Martinez 140
Scott Vrieze 141, 142
Daniel E. Weeks 12
Bruce S. Weir 40, 41, 48, 95
Scott T. Weiss 18
Lu-Chen Weng 6, 143, 144
Cristen J. Willer 73, 74, 75
Yingze Zhang 1, 2
Xutong Zhao 145
Donna K Arnett 146
Allison E. Ashley-Koch 59
Kathleen C Barnes 147, 148
Eric Boerwinkle 17
Stacey Gabriel 148
RICHARD GIBBS 12
Kenneth M Rice 101, 102
Stephen S Rich 48
Edwin K. Silverman 28
Pankaj Qasba 28
Weiniu Gan 28
George J. Papanicolaou 7, 149, 150
Deborah A. Nickerson 12
S. Browning 11
Michael C. Zody 1, 2, 151
Sebastian Zöllner 152
James G Wilson 13, 31
L A Cupples 12
Cathy C Laurie 28
Cashell E. Jaquish 38, 153, 154, 155, 156
Ryan D. Hernandez 3, 4, 5
Timothy D. O’Connor 1
26
 
The EMMES Corporation, Rockville, USA
31
 
Framingham Heart Study, Framingham, USA
56
 
Vitalant Research Institute, San Francisco, USA
71
 
Institute for Biomedicine, EURAC Research, Bolzano, Italy
76
 
VA Boston HealthCare System, Boston, USA
83
 
BloodWorks Northwest Research Institute, Seattle, USA
86
 
Department of Epidemiology, Vitalant Research Institute, San Francisco, USA
89
 
Hinda and Arthur Marcus Institute for Aging Research, Hebrew SeniorLife, Boston, USA
99
 
Department of Genes and Human Disease, Oklahoma Medical Research Foundation, Oklahoma City, USA
112
 
Geriatrics Research and Education Clinical Center, Baltimore Veterans Administration Medical Center, Baltimore, USA
113
 
Texas Cardiac Arrhythmia Institute, St David’s Medical Center, Austin, USA
121
 
Kaiser Permanente Washington Health Research Institute, Seattle, USA
127
 
Macrogen Inc, Seoul, Republic of Korea
131
 
AFLAC Cancer and Blood Disorders Center, Children’s Healthcare of Atlanta, Atlanta, USA
132
 
Taichung Veterans General Hospital Taiwan, Taichung City, Taiwan
133
 
Seattle Epidemiologic Research and Information Center, Department of Veterans Affairs Office of Research and Development, Seattle, USA
139
 
Illumina Laboratory Services, Illumina Inc, San Diego, USA
149
 
Northwest Genomics Center, Seattle, USA
150
 
Brotman Baty Institute, Seattle, USA
Publication typeJournal Article
Publication date2021-02-10
scimago Q1
wos Q1
SJR18.288
CiteScore78.1
Impact factor48.5
ISSN00280836, 14764687
Multidisciplinary
Abstract
The Trans-Omics for Precision Medicine (TOPMed) programme seeks to elucidate the genetic architecture and biology of heart, lung, blood and sleep disorders, with the ultimate goal of improving diagnosis, treatment and prevention of these diseases. The initial phases of the programme focused on whole-genome sequencing of individuals with rich phenotypic data and diverse backgrounds. Here we describe the TOPMed goals and design as well as the available resources and early insights obtained from the sequence data. The resources include a variant browser, a genotype imputation server, and genomic and phenotypic data that are available through dbGaP (Database of Genotypes and Phenotypes)1. In the first 53,831 TOPMed samples, we detected more than 400 million single-nucleotide and insertion or deletion variants after alignment with the reference genome. Additional previously undescribed variants were detected through assembly of unmapped reads and customized analysis in highly variable loci. Among the more than 400 million detected variants, 97% have frequencies of less than 1% and 46% are singletons that are present in only one individual (53% among unrelated individuals). These rare variants provide insights into mutational processes and recent human evolutionary history. The extensive catalogue of genetic variation in TOPMed studies provides unique opportunities for exploring the contributions of rare and noncoding sequence variants to phenotypic variation. Furthermore, combining TOPMed haplotypes with modern imputation methods improves the power and reach of genome-wide association studies to include variants down to a frequency of approximately 0.01%. The goals, resources and design of the NHLBI Trans-Omics for Precision Medicine (TOPMed) programme are described, and analyses of rare variants detected in the first 53,831 samples provide insights into mutational processes and recent human evolutionary history.
Found 
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Taliun D. et al. Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program // Nature. 2021. Vol. 590. No. 7845. pp. 290-299.
GOST all authors (up to 50) Copy
Taliun D. et al. Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program // Nature. 2021. Vol. 590. No. 7845. pp. 290-299.
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BibTex (up to 50 authors) Copy
@article{2021_Taliun,
author = {Daniel Taliun and Daniel N Harris and Michael D. Kessler and Jedidiah Carlson and Zachary A Szpiech and Raúl Torres and Sarah A. Gagliano Taliun and André Corvelo and Stephanie M. Gogarten and Hyun Min Kang and Achilleas N. Pitsillides and Jonathon LeFaive and Seung-been Lee and Xiaowen Tian and Brian L Browning and Sayantan Das and Anne-Katrin Emde and Wayne E. Clarke and Douglas P Loesch and Amol Shetty and Thomas W Blackwell and Albert B. Smith and Quenna Wong and Xiaoming Liu and Matthew P. Conomos and Dean M Bobo and François Aguet and Christine Albert and Alvaro Alonso and Kristin G. Ardlie and Dan E Arking and Stella Aslibekyan and Paul L. Auer and John Barnard and R. Graham Barr and Lucas Barwick and LEWIS C. BECKER and Rebecca L Beer and Emelia J. Benjamin and Lawrence F. Bielak and John Blangero and Michael Boehnke and Donald W Bowden and Jennifer A. Brody and Esteban G. Burchard and Brian E. Cade and James F. Casella and Brandon Chalazan and Daniel I. Chasman and Yii-Der Ida Chen and others},
title = {Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program},
journal = {Nature},
year = {2021},
volume = {590},
publisher = {Springer Nature},
month = {feb},
url = {https://doi.org/10.1038/s41586-021-03205-y},
number = {7845},
pages = {290--299},
doi = {10.1038/s41586-021-03205-y}
}
MLA
Cite this
MLA Copy
Taliun, Daniel, et al. “Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program.” Nature, vol. 590, no. 7845, Feb. 2021, pp. 290-299. https://doi.org/10.1038/s41586-021-03205-y.