Improved imputation of common and uncommon SNPs with a new reference set

被引:33
作者
Wang, Zhaoming [1 ,2 ]
Jacobs, Kevin B. [1 ,2 ]
Yeager, Meredith [1 ,2 ]
Hutchinson, Amy [1 ,2 ]
Sampson, Joshua [1 ]
Chatterjee, Nilanjan [1 ]
Albanes, Demetrius [1 ]
Berndt, Sonja I. [1 ]
Chung, Charles C. [1 ]
Diver, W. Ryan [3 ]
Gapstur, Susan M. [3 ]
Teras, Lauren R. [3 ]
Haiman, Christopher A. [4 ]
Henderson, Brian E. [4 ]
Stram, Daniel [4 ]
Deng, Xiang [1 ,2 ]
Hsing, Ann W. [1 ]
Virtamo, Jarmo [5 ]
Eberle, Michael A. [6 ]
Stone, Jennifer L. [6 ]
Purdue, Mark P. [1 ]
Taylor, Phil [1 ]
Tucker, Margaret [1 ]
Chanock, Stephen J. [1 ]
机构
[1] NCI, Div Canc Epidemiol & Genet, US Natl Inst Hlth NIH, Bethesda, MD 20892 USA
[2] Natl Canc Inst NCI Frederick, Core Genotyping Facil, SAIC Frederick, Frederick, MD USA
[3] Amer Canc Soc, Epidemiol Res Program, Atlanta, GA 30329 USA
[4] Univ So Calif, Dept Prevent Med, Keck Sch Med, Norris Comprehens Canc Ctr, Los Angeles, CA 90089 USA
[5] Natl Inst Hlth & Welf, Dept Chron Dis Prevent, Helsinki, Finland
[6] Illumina, San Diego, CA USA
关键词
BASE-LINE CHARACTERISTICS; GENOME-WIDE ASSOCIATION; GENOTYPE IMPUTATION; COHORT; MAP;
D O I
10.1038/ng.1044
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
引用
收藏
页码:6 / 7
页数:2
相关论文
共 11 条
[1]   A map of human genome variation from population-scale sequencing [J].
Altshuler, David ;
Durbin, Richard M. ;
Abecasis, Goncalo R. ;
Bentley, David R. ;
Chakravarti, Aravinda ;
Clark, Andrew G. ;
Collins, Francis S. ;
De la Vega, Francisco M. ;
Donnelly, Peter ;
Egholm, Michael ;
Flicek, Paul ;
Gabriel, Stacey B. ;
Gibbs, Richard A. ;
Knoppers, Bartha M. ;
Lander, Eric S. ;
Lehrach, Hans ;
Mardis, Elaine R. ;
McVean, Gil A. ;
Nickerson, DebbieA. ;
Peltonen, Leena ;
Schafer, Alan J. ;
Sherry, Stephen T. ;
Wang, Jun ;
Wilson, Richard K. ;
Gibbs, Richard A. ;
Deiros, David ;
Metzker, Mike ;
Muzny, Donna ;
Reid, Jeff ;
Wheeler, David ;
Wang, Jun ;
Li, Jingxiang ;
Jian, Min ;
Li, Guoqing ;
Li, Ruiqiang ;
Liang, Huiqing ;
Tian, Geng ;
Wang, Bo ;
Wang, Jian ;
Wang, Wei ;
Yang, Huanming ;
Zhang, Xiuqing ;
Zheng, Huisong ;
Lander, Eric S. ;
Altshuler, David L. ;
Ambrogio, Lauren ;
Bloom, Toby ;
Cibulskis, Kristian ;
Fennell, Tim J. ;
Gabriel, Stacey B. .
NATURE, 2010, 467 (7319) :1061-1073
[2]  
[Anonymous], 1994, Ann Epidemiol, V4, P1
[3]   A Unified Approach to Genotype Imputation and Haplotype-Phase Inference for Large Data Sets of Trios and Unrelated Individuals [J].
Browning, Brian L. ;
Browning, Sharon R. .
AMERICAN JOURNAL OF HUMAN GENETICS, 2009, 84 (02) :210-223
[4]   The American Cancer Society cancer prevention study II nutrition cohort - Rationale, study design, and baseline characteristics [J].
Calle, EE ;
Rodriguez, C ;
Jacobs, EJ ;
Almon, ML ;
Chao, A ;
McCullough, ML ;
Feigelson, HS ;
Thun, MJ .
CANCER, 2002, 94 (09) :2490-2501
[5]   A second generation human haplotype map of over 3.1 million SNPs [J].
Frazer, Kelly A. ;
Ballinger, Dennis G. ;
Cox, David R. ;
Hinds, David A. ;
Stuve, Laura L. ;
Gibbs, Richard A. ;
Belmont, John W. ;
Boudreau, Andrew ;
Hardenbol, Paul ;
Leal, Suzanne M. ;
Pasternak, Shiran ;
Wheeler, David A. ;
Willis, Thomas D. ;
Yu, Fuli ;
Yang, Huanming ;
Zeng, Changqing ;
Gao, Yang ;
Hu, Haoran ;
Hu, Weitao ;
Li, Chaohua ;
Lin, Wei ;
Liu, Siqi ;
Pan, Hao ;
Tang, Xiaoli ;
Wang, Jian ;
Wang, Wei ;
Yu, Jun ;
Zhang, Bo ;
Zhang, Qingrun ;
Zhao, Hongbin ;
Zhao, Hui ;
Zhou, Jun ;
Gabriel, Stacey B. ;
Barry, Rachel ;
Blumenstiel, Brendan ;
Camargo, Amy ;
Defelice, Matthew ;
Faggart, Maura ;
Goyette, Mary ;
Gupta, Supriya ;
Moore, Jamie ;
Nguyen, Huy ;
Onofrio, Robert C. ;
Parkin, Melissa ;
Roy, Jessica ;
Stahl, Erich ;
Winchester, Ellen ;
Ziaugra, Liuda ;
Altshuler, David ;
Shen, Yan .
NATURE, 2007, 449 (7164) :851-U3
[6]   A Flexible and Accurate Genotype Imputation Method for the Next Generation of Genome-Wide Association Studies [J].
Howie, Bryan N. ;
Donnelly, Peter ;
Marchini, Jonathan .
PLOS GENETICS, 2009, 5 (06)
[7]  
Kolonel LN, 2000, AM J EPIDEMIOL, V151, P346, DOI 10.1093/oxfordjournals.aje.a010213
[8]  
Li K, 2002, INT J CANCER, V102, P271, DOI [10.1002/jhc.10706, 10.1002/ijc.10706]
[9]   Genotype imputation for genome-wide association studies [J].
Marchini, Jonathan ;
Howie, Bryan .
NATURE REVIEWS GENETICS, 2010, 11 (07) :499-511
[10]   Estimation of effect size distribution from genome-wide association studies and implications for future discoveries [J].
Park, Ju-Hyun ;
Wacholder, Sholom ;
Gail, Mitchell H. ;
Peters, Ulrike ;
Jacobs, Kevin B. ;
Chanock, Stephen J. ;
Chatterjee, Nilanjan .
NATURE GENETICS, 2010, 42 (07) :570-U139