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
9
10
26
The EMMES Corporation, Rockville, USA
|
31
Framingham Heart Study, Framingham, USA
|
49
51
55
56
Vitalant Research Institute, San Francisco, USA
|
63
64
69
71
Institute for Biomedicine, EURAC Research, Bolzano, Italy
|
72
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
|
110
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
|
126
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
|
152
154
Publication type: Journal Article
Publication date: 2021-02-10
scimago Q1
wos Q1
SJR: 18.288
CiteScore: 78.1
Impact factor: 48.5
ISSN: 00280836, 14764687
PubMed ID:
33568819
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.
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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)
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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.
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@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}
}
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.