An integrated map of genetic variation from 1,092 human genomes
Abstrak
By characterizing the geographic and functional spectrum of human genetic variation, the 1000 Genomes Project aims to build a resource to help to understand the genetic contribution to disease. Here we describe the genomes of 1,092 individuals from 14 populations, constructed using a combination of low-coverage whole-genome and exome sequencing. By developing methods to integrate information across several algorithms and diverse data sources, we provide a validated haplotype map of 38 million single nucleotide polymorphisms, 1.4 million short insertions and deletions, and more than 14,000 larger deletions. We show that individuals from different populations carry different profiles of rare and common variants, and that low-frequency variants show substantial geographic differentiation, which is further increased by the action of purifying selection. We show that evolutionary conservation and coding consequence are key determinants of the strength of purifying selection, that rare-variant load varies substantially across biological pathways, and that each individual contains hundreds of rare non-coding variants at conserved sites, such as motif-disrupting changes in transcription-factor-binding sites. This resource, which captures up to 98% of accessible single nucleotide polymorphisms at a frequency of 1% in related populations, enables analysis of common and low-frequency variants in individuals from diverse, including admixed, populations.
Penulis (500)
Gil A. David M. Richard M. Gonçalo R. David R. Aravind McVean Altshuler (Co-Chair) Durbin (Co-Chair) Abec
G. McVean
David M. Richard M. Gonçalo R. David R. Aravinda Andrew Altshuler (Co-Chair) Durbin (Co-Chair) Abecasis Be
David M. Altshuler (Co-Chair)
Richard M. Durbin (Co-Chair)
G. Abecasis
D. Bentley
A. Chakravarti
A. Clark
P. Donnelly
Evan E. Eichler
Paul Flicek
S. Gabriel
R. A. Gibbs
E. Green
M. Hurles
B. Knoppers
J. Korbel
E. Lander
Charles Lee
H. Lehrach
E. Mardis
Gabor T. Marth
G. McVean
D. Nickerson
Jeanette Schmidt
S. Sherry
Jun Wang
R. Wilson
Richard A. Huyen Christie Sandra Lora Donna Jeff Min Jun X Gibbs (Principal Investigator) Dinh Kovar Lee Lewi
Richard A. Huyen Christie Sandra Lora Donna Jeff Min Gibbs (Principal Investigator) Dinh Kovar Lee Lewi
Richard A. Gibbs (Principal Investigator)
H. Dinh
C. Kovar
Sandy Lee
L. Lewis
D. Muzny
J. Reid
Min Wang
Jun Xiaodong Xiaosen Min Hui Xin Guoqing Jingxiang Yin Wang (Principal Investigator) Fang Guo Jian Jiang
Jun Wang (Principal Investigator)
X. Fang
Xiaosen Guo
Min Jian
Hui Jiang
Xin Jin
Guoqing Li
Jingxiang Li
Yingrui Li
Zhu Li
Xiao Liu
Yao Lu
Xuedi Ma
Zheng Su
S. Tai
M. Tang
Bo Wang
Guangbiao Wang
Honglong Wu
Renhua Wu
Ye Yin
Wenwei Zhang
Jiao Zhao
Meiru Zhao
Xiaole Zheng
Yan Zhou
Eric S. David M. Stacey B. Namrata Lander (Principal Investigator) Altshuler Gabriel
Eric S. Lander (Principal Investigator)
D. Altshuler
Stacey B. Gabriel (Co-Chair)
N. Gupta
Paul Laura Rasko Richard E. Xiangqun Flicek (Principal Investigator) Clarke Leinonen Sm
Paul Flicek (Principal Investigator)
Laura Clarke
Rasko Leinonen
Richard E. Smith
Xiangqun Zheng-Bradley
David R. Russell Sean Terena Zoya Bentley (Principal Investigator) Grocock Humphray
David R. Bentley (Principal Investigator)
R. Grocock
S. Humphray
Terena James
Z. Kingsbury
Hans Ralf Marcus W. Vyacheslav S. Tatiana A. Matthias F Lehrach (Principal Investigator) Sudbrak (Project
Hans Lehrach (Principal Investigator)
Ralf Sudbrak (Project Leader)
Marcus W. Albrecht
V. Amstislavskiy
T. Borodina
M. Lienhard
F. Mertes
M. Sultan
B. Timmermann
M. Yaspo
Stephen T. Sherry (Principal Investigator)
Gil A. McVean (Principal Investigator)
Elaine R. Richard K. Lucinda Robert George M. Mardis (Co-Principal Investigator) (Co-Chair) Wils
Elaine R. Mardis (Co-Principal Investigator) (Co-Chair)
Richard K. Wilson (Co-Principal Investigator)
L. Fulton
R. Fulton
G. Weinstock
Richard M. Senduran John Petr Thomas M. Anja Shane James M Durbin (Principal Investigator) Balasubramaniam Bu
Richard M. Durbin (Principal Investigator)
Senduran Balasubramaniam
J. Burton
P. Danecek
Thomas M. Keane
Anja Kolb-Kokocinski
Shane A. McCarthy
J. Stalker
Michael A. Quail
Jeanette P. Christopher J. Jeremy Teresa Brant Yiping Adam Schmidt (Principal Investigator) Davies Gollub Web
Jeanette P. Christopher J. Jeremy Teresa Brant Yiping Schmidt (Principal Investigator) Davies Gollub Web
Jeanette P. Schmidt (Principal Investigator)
C. J. Davies
J. Gollub
Teresa A. Webster
Brant Wong
Yiping Zhan
Adam Auton (Principal Investigator)
Richard A. Fuli Matthew Danny Uday S. James Donna Uma Jeff Gibbs (Principal Investigator) Yu (Project Leader)
Fuli Yu (Project Leader)
M. Bainbridge
Danny Challis
U. S. Evani
James T. Lu
U. Nagaswamy
A. Sabo
Yi Wang
Jin Yu
Jun Lachlan J. M. Lin Xiaosen Xin Guoqing Qibin Yingru Wang (Principal Investigator) Coin Fang Guo Jin Li
L. Coin
L. Fang
Qibin Li
Zhenyu Li
Haoxiang Lin
Binghang Liu
Ruibang Luo
Nan Qin
Haojing Shao
Bingqi Wang
Yinlong Xie
C. Ye
Chang Yu
Fan Zhang
Hancheng Zheng
Hongmei Zhu
Gabor T. Erik P. Deniz Wan-Ping Wen Alistair N. Jiantao Marth (Principal Investigator) Garrison Kural Lee
Gabor T. Marth (Principal Investigator)
Erik P. Garrison
Deniz Kural
Wan-Ping Lee
Wen Fung Leong
Alistair N. Ward
Jiantao Wu
Mengyao Zhang
Charles Lauren Chih-Heng Ryan E. Xinghua Marcin Chengsheng Lee (Principal Investigator) Griffin Hsieh Mills S
Charles Lee (Principal Investigator)
Lauren E. Griffin
Chih-heng Hsieh
Ryan E. Mills
Xinghua Shi
Marcin von Grotthuss
Chengsheng Zhang
Mark J. Mark A. David M. Eric Gaurav Mauricio O. Guille Daly (Principal Investigator) DePristo (Project Le
Mark J. Daly (Principal Investigator)
Mark A. DePristo (Project Leader)
E. Banks
G. Bhatia
Mauricio O. Carneiro
G. Del Angel
G. Genovese
R. Handsaker
C. Hartl
S. Mccarroll
J. Nemesh
R. Poplin
S. Schaffner
Khalid Shakir
Seungtai C. Jayon Vladimir Yoon (Principal Investigator) Lihm Makarov
Seungtai C. Yoon (Principal Investigator)
Jayon Lihm
Vladimir Makarov
Hanjun Wook Ki Jin (Principal Investigator) Kim Cheol Kim
Hanjun Jin (Principal Investigator)
Wook Kim
Ki Cheol Kim
Jan O. Tobias Korbel (Principal Investigator) Rausch
Jan O. Korbel (Principal Investigator)
T. Rausch
Paul Kathryn Laura Fiona Javier William M. Graham R. S. Flicek (Principal Investigator) Beal Clarke Cunnin
Kathryn M Beal
Fiona Cunningham
Javier Herrero
W. McLaren
G. Ritchie
Andrew G. Srikanth Alon Juan L. Clark (Principal Investigator) Gottipati Keinan Ro
Andrew G. Clark (Principal Investigator)
S. Gottipati
A. Keinan
Juan L. Rodriguez-Flores
Pardis C. Sharon R. Shervin Ridhi Sabeti (Principal Investigator) Grossman Tabrizi T
Pardis C. Sabeti (Principal Investigator)
S. Grossman
S. Tabrizi
Ridhi Tariyal
David N. Edward V. Peter D. Cooper (Principal Investigator) Ball Stenson
David N. Cooper (Principal Investigator)
E. Ball
P. Stenson
David R. Bret Markus R. Tony Michael Sean Scott Lisa Joh Bentley (Principal Investigator) Barnes Bauer Keir
B. Barnes
Markus Bauer
R. Keira Cheetham
Tony Cox
M. Eberle
Scott D. Kahn
L. Murray
J. Peden
Richard Shaw
Kai Ye (Principal Investigator)
Mark A. Miriam K. Jerilyn A. Batzer (Principal Investigator) Konkel Walker
Mark A. Batzer (Principal Investigator)
Miriam K. Konkel
Jerilyn A. Walker
Daniel G. Monkol MacArthur (Principal Investigator) Lek
Daniel G. MacArthur (Principal Investigator)
M. Lek
Vyacheslav S. Ralf Sudbrak (Project Leader) Amstislavskiy Herwig
Sudbrak (Project Leader)
R. Herwig
Mark D. Shriver (Principal Investigator)
Carlos D. Jake K. Francisco M. Simon Eimear E. Jeffrey M. Bustamante (Principal Investigator) Byrnes De La V
Carlos D. Bustamante (Principal Investigator)
Jake K. Byrnes
F. M. De La Vega
S. Gravel
E. Kenny
J. Kidd
P. Lacroute
B. K. Maples
A. Moreno-Estrada
Fouad Zakharia
Eran Yael Halperin (Principal Investigator) Baran
Eran Halperin (Principal Investigator)
Yael Baran
David W. Alexis Nils Tyler Ahmet A. Shripad A. Kevin Craig (Principal Investigator) Christoforides Home
David W. Craig (Principal Investigator)
Alexis Christoforides
Nils Homer
Tyler Izatt
Ahmet A. Kurdoglu
Shripad A. Sinari
Kevin Squire
Stephen T. Chunlin Sherry (Principal Investigator) Xiao
Chunlin Xiao
Jonathan Vineet Kenny Sebat (Principal Investigator) Bafna Ye
Jonathan Sebat (Principal Investigator)
V. Bafna
Kenny Q. Ye
Esteban G. Ryan D. Christopher R. Burchard (Principal Investigator) Hernandez (Princ
Esteban G. Burchard (Principal Investigator)
Ryan D. Hernandez (Principal Investigator)
Christopher R. Gignoux
David Sol J. W. Haussler (Principal Investigator) Katzman James Ke
David Haussler (Principal Investigator)
Sol Katzman
W. James Kent
Bryan N. Howie
Andres Ruiz-Linares (Principal Investigator)
Emmanouil T. Tuuli Dermitzakis (Principal Investigator) Lappalainen
Emmanouil T. Dermitzakis (Principal Investigator)
T. Lappalainen
Scott E. Xinyue Ankit Luke J. Devine (Principal Investigator) Liu Maroo Tallon
Scott E. Devine (Principal Investigator)
Xinyue Liu
A. Maroo
L. Tallon
Jeffrey A. Leslie P. Rosenfeld (Principal Investigator) Michelson
Jeffrey A. Rosenfeld (Principal Investigator)
L. P. Michelson
Gonçalo R. Hyun Paul Andrea Abigail Tom Fabio Francesco Ch Abecasis (Principal Investigator) (Co-Chair) Min K
Gonçalo R. Abecasis (Principal Investigator) (Co-Chair)
Hyun Min Kang (Project Leader)
Paul Anderson
A. Angius
A. Bigham
T. Blackwell
F. Busonero
F. Cucca
C. Fuchsberger
Chris Jones
G. Jun
Yun Li
R. Lyons
A. Maschio
E. Porcu
F. Reinier
S. Sanna
D. Schlessinger
C. Sidore
Adrian Tan
Mary Kate Trost
Philip Alan Awadalla (Principal Investigator) Hodgkinson
Philip Awadalla (Principal Investigator)
A. Hodgkinson
Gerton Gil A. Jonathan L. Simon Claire Olivier Anjali Zam Lunter (Principal Investigator) McVean (Principal
Gerton Lunter (Principal Investigator)
Gil A. McVean (Principal Investigator) (Co-Chair)
Jonathan L. Marchini (Principal Investigator)
Simon Myers (Principal Investigator)
C. Churchhouse
Olivier Delaneau
Anjali Gupta-Hinch
Z. Iqbal
I. Mathieson
A. Rimmer
Dionysia K. Xifara
Taras K. Oleksyk (Principal Investigator)
Yunxin Xiaoming Momiao Fu (Principal Investigator) Liu Xiong
Yunxin Fu (Principal Investigator)
Xiaoming Liu
Momiao Xiong
Lynn David Jinchuan Jorde (Principal Investigator) Witherspoon Xing
Lynn Jorde (Principal Investigator)
D. Witherspoon
Jinchuan Xing
Evan E. Brian L. Can Iman Fereydoun Arthur Peter H. Eichler (Principal Investigator) Browning (Princip
Evan E. Eichler (Principal Investigator)
Brian L. Browning (Principal Investigator)
C. Alkan
Iman Hajirasouliha
F. Hormozdiari
Arthur Ko
Peter Sudmant
Elaine R. Ken Asif Li David Daniel C. Michael D. John W. Mardis (Co-Principal Investigator) Chen Chinwalla
Elaine R. Mardis (Co-Principal Investigator)
Ken Chen
A. Chinwalla
L. Ding
D. Dooling
D. Koboldt
M. McLellan
J. Wallis
M. Wendl
Qunyuan Zhang
Richard M. Matthew E. Chris Cornelis A. Qasim Senduran Yua Durbin (Principal Investigator) Hurles (Principal
Matthew E. Hurles (Principal Investigator)
Chris Tyler-Smith (Principal Investigator)
C. A. Albers
Q. Ayub
Yuan Chen
A. Coffey
V. Colonna
N. Huang
L. Jostins
Heng Li
A. Scally
Klaudia Walter
Yali Xue
Yujun Zhang
Mark B. Alexej Suganthi Jieming Declan Yao Lukas Arif O Gerstein (Principal Investigator) Abyzov Balasubra
Mark B. Gerstein (Principal Investigator)
A. Abyzov
S. Balasubramanian
Jieming Chen
Declan Clarke
Yao Fu
L. Habegger
A. Harmanci
Mike Jin
Ekta Khurana
Xinmeng Jasmine Mu
Cristina Sisu
Yingrui Ruibang Hongmei Charles Lauren Chih-Heng Ryan E. X Li Luo Zhu Lee (Principal Investigator) (Co-Chair)
Yingrui Ruibang Hongmei Li Luo Zhu
Charles Lauren Chih-Heng Ryan E. Xinghua Marcin Chengsheng Lee (Principal Investigator) (Co-Chair) Griffin Hs
Charles Lee (Principal Investigator) (Co-Chair)
Gabor T. Erik P. Deniz Wan-Ping Alistair N. Jiantao Meng Marth (Principal Investigator) Garrison Kural Lee
Steven A. David M. Eric Guillermo Giulio Robert E. Chris McCarroll (Project Leader) Altshuler Banks del Ang
Steven A. McCarroll (Project Leader)
Jeremiah D. Degenhardt
Paul Laura Richard E. Xiangqun Flicek (Principal Investigator) Clarke Smith Zheng
Jan O. Tobias Adrian M. Korbel (Principal Investigator) (Co-Chair) Rausch
Jan O. Korbel (Principal Investigator) (Co-Chair)
A. Stütz
David R. Bret R. Michael Sean Scott Lisa Richard Bentley (Principal Investigator) Barnes Keira Chee
David W. Nils Craig (Principal Investigator) Homer
Deanna Chunlin Church Xiao
D. Church
Jonathan Vineet Jacob J. Kenny Sebat (Principal Investigator) Bafna Michaelson Ye
J. Michaelson
Gerton Gil A. Zamin Lunter (Principal Investigator) McVean (Principal
David Jinchuan Witherspoon Xing
Evan E. Can Iman Fereydoun Arthur Peter H. Eichler (Principal Investigator) (Co-Chair) Alkan
Evan E. Eichler (Principal Investigator) (Co-Chair)
Ken Asif Li Michael D. John W. Chen Chinwalla Ding McLellan Wallis
Matthew E. Ben Heng Sarah J. Zemin Aylwyn Klaudia Yujun Hurles (Principal Investigator) (Co-Chair) Blackbu
Matthew E. Hurles (Principal Investigator) (Co-Chair)
Benjamin P. Blackburne
S. Lindsay
Z. Ning
Mark B. Alexej Jieming Declan Ekta Xinmeng Cristina Gerstein (Principal Investigator) Abyzov Chen Clar
Mark B. Gerstein (Principal Investigator)
Richard A. Fuli Matthew Danny Uday S. Christie Lora James Gibbs (Principal Investigator) (Co-Chair) Yu (Proj
Richard A. Fuli Matthew Danny Uday S. Christie Lora James Gibbs (Principal Investigator) (Co-Chair) Yu (Proj
Richard A. Gibbs (Principal Investigator) (Co-Chair)
Xiaosen Yingrui Renhua Guo Li Wu
Gabor T. Erik P. Wen Alistair N. Marth (Principal Investigator) (Co-Chair) Garrison
Gabor T. Marth (Principal Investigator) (Co-Chair)
Guillermo Mark A. Stacey B. Namrata Chris Ryan E. del Angel DePristo Gabriel Gupta Hartl Poplin
M. DePristo
Andrew G. Juan L. Clark (Principal Investigator) Rodriguez-Flores
Carlos D. Simon Bustamante (Principal Investigator) Gravel
David W. Alexis Nils Tyler Craig (Principal Investigator) Christoforides Home
Gonçalo R. Hyun Abecasis (Principal Investigator) Min Kang
Gonçalo R. Abecasis (Principal Investigator)
Hyun Min Kang
Elaine R. David Lucinda Robert Daniel C. Mardis (Principal Investigator) Dooling Fulton Ful
Elaine R. Mardis (Principal Investigator)
Richard M. Senduran Thomas M. Shane James Durbin (Principal Investigator) Balasubramaniam Ke
Mark B. Suganthi Lukas Gerstein (Principal Investigator) Balasubramanian
Erik P. Richard A. Matthew Donna Fuli Jin Guillermo Rob Garrison Gibbs (Principal Investigator) Bainbridge
Richard A. Matthew Donna Fuli Jin Gibbs (Principal Investigator) Bainbridge Muzny Yu
F. Yu
Guillermo Robert E. del Angel Handsaker
Paul Kathryn Laura Fiona Javier William M. Graham R. S. Flicek (Principal Investigator) Beal Clarke Cunnin
Carlos D. Francisco M. Bustamante (Principal Investigator) De La Vega
David W. Ahmet A. Craig (Principal Investigator) Kurdoglu
Chris Yuan Vincenza Adam Jennifer Yali Tyler-Smith (Principal Investigator) (Co-Chair) Ch
Chris Tyler-Smith (Principal Investigator) (Co-Chair)
A. Frankish
J. Harrow
Mark B. Alexej Suganthi Jieming Declan Yao Arif O. Mike Gerstein (Principal Investigator) (Co-Chair) Abyzo
Mark B. Gerstein (Principal Investigator) (Co-Chair)
Richard A. Gerald Walker Divya Christie Donna Jeff Jun Xia Gibbs (Principal Investigator) Fowler Hale Kalra K
Richard A. Gerald Walker Divya Christie Donna Jeff Gibbs (Principal Investigator) Fowler Hale Kalra K
G. Fowler
Walker Hale
D. Kalra
Jun Xiaosen Guoqing Yingrui Xiaole Wang (Principal Investigator) Guo Li Li Zheng
Paul Laura Jonathan Gavin Eugene Rasko William M. Rajes Flicek (Principal Investigator) (Co-Chair) Clarke
Paul Flicek (Principal Investigator) (Co-Chair)
Laura Clarke (Project Leader)
Jonathan A. Barker
G. Kelman
Eugene Kulesha
Rajesh Radhakrishnan
Asier Roa
Dmitriy Smirnov
Ian Streeter
I. Toneva
Brendan W. Vaughan
David R. Tony Sean Scott Bentley (Principal Investigator) Cox Humphray Kahn
Ralf Marcus W. Matthias Sudbrak (Project Leader) Albrecht Lienhard
David W. Tyler Ahmet A. Craig (Principal Investigator) Izatt Kurdoglu
Stephen T. Victor Zinaida Dimitriy Nathan Chao Deanna Robe Sherry (Principal Investigator) (Co-Chair) Ananiev
Stephen T. Sherry (Principal Investigator) (Co-Chair)
Victor Ananiev
Zinaida Belaia
Dimitriy Beloslyudtsev
Nathan Bouk
Chao Chen
Robert Cohen
Charles Cook
John Garner
T. Hefferon
M. Kimelman
Chunlei Liu
John Lopez
Peter A. Meric
Christa O'Sullivan
Yu. G. Ostapchuk
Lon Phan
Sergiy Ponomarov
Valerie A. Schneider
Eugene M. Shekhtman
K. Sirotkin
D. Slotta
Hua Zhang
Can Arthur Alkan Ko
Aravinda Bartha M. Gonçalo R. Kathleen C. Christine Esteban Chakravarti (Co-Chair) Knoppers (Co-Chair) Abecasi
Aravinda Chakravarti (Co-Chair)
Bartha M. Knoppers (Co-Chair)
G. Abecasis
K. Barnes
C. Beiswanger
E. Burchard
C. Bustamante
Hongyu Cai
H. Cao
R. Durbin
N. Gharani
R. A. Gibbs
B. Henn
Danielle A. Jones
L. Jorde
J. Kaye
A. Kent
Akses Cepat
- Tahun Terbit
- 2012
- Bahasa
- en
- Total Sitasi
- 7972×
- Sumber Database
- Semantic Scholar
- DOI
- 10.1038/nature11632
- Akses
- Open Access ✓