Comparing Algorithms for Genotype Imputation

被引:29
作者
Marchini, Jonathan [1 ]
Howie, Bryan [1 ]
机构
[1] Univ Oxford, Dept Stat, Oxford OX1 3TG, England
基金
英国惠康基金;
关键词
D O I
10.1016/j.ajhg.2008.09.007
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
引用
收藏
页码:535 / 539
页数:5
相关论文
共 9 条
[1]   Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls [J].
Burton, Paul R. ;
Clayton, David G. ;
Cardon, Lon R. ;
Craddock, Nick ;
Deloukas, Panos ;
Duncanson, Audrey ;
Kwiatkowski, Dominic P. ;
McCarthy, Mark I. ;
Ouwehand, Willem H. ;
Samani, Nilesh J. ;
Todd, John A. ;
Donnelly, Peter ;
Barrett, Jeffrey C. ;
Davison, Dan ;
Easton, Doug ;
Evans, David ;
Leung, Hin-Tak ;
Marchini, Jonathan L. ;
Morris, Andrew P. ;
Spencer, Chris C. A. ;
Tobin, Martin D. ;
Attwood, Antony P. ;
Boorman, James P. ;
Cant, Barbara ;
Everson, Ursula ;
Hussey, Judith M. ;
Jolley, Jennifer D. ;
Knight, Alexandra S. ;
Koch, Kerstin ;
Meech, Elizabeth ;
Nutland, Sarah ;
Prowse, Christopher V. ;
Stevens, Helen E. ;
Taylor, Niall C. ;
Walters, Graham R. ;
Walker, Neil M. ;
Watkins, Nicholas A. ;
Winzer, Thilo ;
Jones, Richard W. ;
McArdle, Wendy L. ;
Ring, Susan M. ;
Strachan, David P. ;
Pembrey, Marcus ;
Breen, Gerome ;
St Clair, David ;
Caesar, Sian ;
Gordon-Smith, Katherine ;
Jones, Lisa ;
Fraser, Christine ;
Green, Elain K. .
NATURE, 2007, 447 (7145) :661-678
[2]   A genome-wide association study identifies IL23R as an inflammatory bowel disease gene [J].
Duerr, Richard H. ;
Taylor, Kent D. ;
Brant, Steven R. ;
Rioux, John D. ;
Silverberg, Mark S. ;
Daly, Mark J. ;
Steinhart, A. Hillary ;
Abraham, Clara ;
Regueiro, Miguel ;
Griffiths, Anne ;
Dassopoulos, Themistocles ;
Bitton, Alain ;
Yang, Huiying ;
Targan, Stephan ;
Datta, Lisa Wu ;
Kistner, Emily O. ;
Schumm, L. Philip ;
Lee, Annette T. ;
Gregersen, Peter K. ;
Barmada, M. Michael ;
Rotter, Jerome I. ;
Nicolae, Dan L. ;
Cho, Judy H. .
SCIENCE, 2006, 314 (5804) :1461-1463
[3]   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
[4]   Simple and efficient analysis of disease association with missing genotype data [J].
Lin, D. Y. ;
Hu, Y. ;
Huang, Be .
AMERICAN JOURNAL OF HUMAN GENETICS, 2008, 82 (02) :444-452
[5]   A comparison of phasing algorithms for trios and unrelated individuals [J].
Marchini, J ;
Cutler, D ;
Patterson, N ;
Stephens, M ;
Eskin, E ;
Halperin, E ;
Lin, S ;
Qin, ZS ;
Munro, HM ;
Abecasis, GR ;
Donnelly, P .
AMERICAN JOURNAL OF HUMAN GENETICS, 2006, 78 (03) :437-450
[6]   A new multipoint method for genome-wide association studies by imputation of genotypes [J].
Marchini, Jonathan ;
Howie, Bryan ;
Myers, Simon ;
McVean, Gil ;
Donnelly, Peter .
NATURE GENETICS, 2007, 39 (07) :906-913
[7]   Testing untyped alleles (TUNA) - Applications to genome-wide association studies [J].
Nicolae, Dan L. .
GENETIC EPIDEMIOLOGY, 2006, 30 (08) :718-727
[8]   Imputation-based analysis of association studies: Candidate regions and quantitative traits [J].
Servin, Bertrand ;
Stephens, Matthew .
PLOS GENETICS, 2007, 3 (07) :1296-1308
[9]   Meta-analysis of genome-wide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetes [J].
Zeggini, Eleftheria ;
Scott, Laura J. ;
Saxena, Richa ;
Voight, Benjamin F. ;
Marchini, Jonathan L. ;
Hu, Tianle ;
de Bakker, Paul I. W. ;
Abecasis, Goncalo R. ;
Almgren, Peter ;
Andersen, Gitte ;
Ardlie, Kristin ;
Bostroem, Kristina Bengtsson ;
Bergman, Richard N. ;
Bonnycastle, Lori L. ;
Borch-Johnsen, Knut ;
Burtt, Noel P. ;
Chen, Hong ;
Chines, Peter S. ;
Daly, Mark J. ;
Deodhar, Parimal ;
Ding, Chia-Jen ;
Doney, Alex S. F. ;
Duren, William L. ;
Elliott, Katherine S. ;
Erdos, Michael R. ;
Frayling, Timothy M. ;
Freathy, Rachel M. ;
Gianniny, Lauren ;
Grallert, Harald ;
Grarup, Niels ;
Groves, Christopher J. ;
Guiducci, Candace ;
Hansen, Torben ;
Herder, Christian ;
Hitman, Graham A. ;
Hughes, Thomas E. ;
Isomaa, Bo ;
Jackson, Anne U. ;
Jorgensen, Torben ;
Kong, Augustine ;
Kubalanza, Kari ;
Kuruvilla, Finny G. ;
Kuusisto, Johanna ;
Langenberg, Claudia ;
Lango, Hana ;
Lauritzen, Torsten ;
Li, Yun ;
Lindgren, Cecilia M. ;
Lyssenko, Valeriya ;
Marvelle, Amanda F. .
NATURE GENETICS, 2008, 40 (05) :638-645