Rare and common variants: twenty arguments

被引:769
作者
Gibson, Greg [1 ,2 ]
机构
[1] Georgia Inst Technol, Sch Biol, Atlanta, GA 30332 USA
[2] Georgia Inst Technol, Ctr Integrat Genom, Atlanta, GA 30332 USA
基金
美国国家卫生研究院;
关键词
GENOME-WIDE ASSOCIATION; SINGLE-NUCLEOTIDE POLYMORPHISMS; MISSING HERITABILITY; EPIGENETIC INHERITANCE; GENETIC ARCHITECTURE; SEQUENCE VARIANTS; COMPLEX DISEASE; PATERNAL AGE; LOCI; SUSCEPTIBILITY;
D O I
10.1038/nrg3118
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Genome-wide association studies have greatly improved our understanding of the genetic basis of disease risk. The fact that they tend not to identify more than a fraction of the specific causal loci has led to divergence of opinion over whether most of the variance is hidden as numerous rare variants of large effect or as common variants of very small effect. Here I review 20 arguments for and against each of these models of the genetic basis of complex traits and conclude that both classes of effect can be readily reconciled.
引用
收藏
页码:135 / 145
页数:11
相关论文
共 131 条
[1]   Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling [J].
Alizadeh, AA ;
Eisen, MB ;
Davis, RE ;
Ma, C ;
Lossos, IS ;
Rosenwald, A ;
Boldrick, JG ;
Sabet, H ;
Tran, T ;
Yu, X ;
Powell, JI ;
Yang, LM ;
Marti, GE ;
Moore, T ;
Hudson, J ;
Lu, LS ;
Lewis, DB ;
Tibshirani, R ;
Sherlock, G ;
Chan, WC ;
Greiner, TC ;
Weisenburger, DD ;
Armitage, JO ;
Warnke, R ;
Levy, R ;
Wilson, W ;
Grever, MR ;
Byrd, JC ;
Botstein, D ;
Brown, PO ;
Staudt, LM .
NATURE, 2000, 403 (6769) :503-511
[2]   Hundreds of variants clustered in genomic loci and biological pathways affect human height [J].
Allen, Hana Lango ;
Estrada, Karol ;
Lettre, Guillaume ;
Berndt, Sonja I. ;
Weedon, Michael N. ;
Rivadeneira, Fernando ;
Willer, Cristen J. ;
Jackson, Anne U. ;
Vedantam, Sailaja ;
Raychaudhuri, Soumya ;
Ferreira, Teresa ;
Wood, Andrew R. ;
Weyant, Robert J. ;
Segre, Ayellet V. ;
Speliotes, Elizabeth K. ;
Wheeler, Eleanor ;
Soranzo, Nicole ;
Park, Ju-Hyun ;
Yang, Jian ;
Gudbjartsson, Daniel ;
Heard-Costa, Nancy L. ;
Randall, Joshua C. ;
Qi, Lu ;
Smith, Albert Vernon ;
Maegi, Reedik ;
Pastinen, Tomi ;
Liang, Liming ;
Heid, Iris M. ;
Luan, Jian'an ;
Thorleifsson, Gudmar ;
Winkler, Thomas W. ;
Goddard, Michael E. ;
Lo, Ken Sin ;
Palmer, Cameron ;
Workalemahu, Tsegaselassie ;
Aulchenko, Yurii S. ;
Johansson, Asa ;
Zillikens, M. Carola ;
Feitosa, Mary F. ;
Esko, Tonu ;
Johnson, Toby ;
Ketkar, Shamika ;
Kraft, Peter ;
Mangino, Massimo ;
Prokopenko, Inga ;
Absher, Devin ;
Albrecht, Eva ;
Ernst, Florian ;
Glazer, Nicole L. ;
Hayward, Caroline .
NATURE, 2010, 467 (7317) :832-838
[3]   Clinical profile of diabetes in the young seen between 1992 and 2009 at a specialist diabetes centre in south India [J].
Amutha, Anandakumar ;
Datta, Manjula ;
Unnikrishnan, Ittianath Ranjith ;
Anjana, Ranjit Mohan ;
Rema, Mohan ;
Narayan, Kabayam M. Venkat ;
Mohan, Viswanathan .
PRIMARY CARE DIABETES, 2011, 5 (04) :223-229
[4]   Synthetic Associations Are Unlikely to Account for Many Common Disease Genome-Wide Association Signals [J].
Anderson, Carl A. ;
Soranzo, Nicole ;
Zeggini, Eleftheria ;
Barrett, Jeffrey C. .
PLOS BIOLOGY, 2011, 9 (01)
[5]  
[Anonymous], 1999, The genetical theory of natural selection: a complete variorum edition
[6]   Clinical assessment incorporating a personal genome [J].
Ashley, Euan A. ;
Butte, Atul J. ;
Wheeler, Matthew T. ;
Chen, Rong ;
Klein, Teri E. ;
Dewey, Frederick E. ;
Dudley, Joel T. ;
Ormond, Kelly E. ;
Pavlovic, Aleksandra ;
Morgan, Alexander A. ;
Pushkarev, Dmitry ;
Neff, Norma F. ;
Hudgins, Louanne ;
Gong, Li ;
Hodges, Laura M. ;
Berlin, Dorit S. ;
Thorn, Caroline F. ;
Sangkuhl, Katrin ;
Hebert, Joan M. ;
Woon, Mark ;
Sagreiya, Hersh ;
Whaley, Ryan ;
Knowles, Joshua W. ;
Chou, Michael F. ;
Thakuria, Joseph V. ;
Rosenbaum, Abraham M. ;
Zaranek, Alexander Wait ;
Church, George M. ;
Greely, Henry T. ;
Quake, Stephen R. ;
Altman, Russ B. .
LANCET, 2010, 375 (9725) :1525-1535
[7]   Genetic analysis of complex traits in the emerging Collaborative Cross [J].
Aylor, David L. ;
Valdar, William ;
Foulds-Mathes, Wendy ;
Buus, Ryan J. ;
Verdugo, Ricardo A. ;
Baric, Ralph S. ;
Ferris, Martin T. ;
Frelinger, Jeff A. ;
Heise, Mark ;
Frieman, Matt B. ;
Gralinski, Lisa E. ;
Bell, Timothy A. ;
Didion, John D. ;
Hua, Kunjie ;
Nehrenberg, Derrick L. ;
Powell, Christine L. ;
Steigerwalt, Jill ;
Xie, Yuying ;
Kelada, Samir N. P. ;
Collins, Francis S. ;
Yang, Ivana V. ;
Schwartz, David A. ;
Branstetter, Lisa A. ;
Chesler, Elissa J. ;
Miller, Darla R. ;
Spence, Jason ;
Liu, Eric Yi ;
McMillan, Leonard ;
Sarkar, Abhishek ;
Wang, Jeremy ;
Wang, Wei ;
Zhang, Qi ;
Broman, Karl W. ;
Korstanje, Ron ;
Durrant, Caroline ;
Mott, Richard ;
Iraqi, Fuad A. ;
Pomp, Daniel ;
Threadgill, David ;
de Villena, Fernando Pardo-Manuel ;
Churchill, Gary A. .
GENOME RESEARCH, 2011, 21 (08) :1213-1222
[8]   Statistical analysis strategies for association studies involving rare variants [J].
Bansal, Vikas ;
Libiger, Ondrej ;
Torkamani, Ali ;
Schork, Nicholas J. .
NATURE REVIEWS GENETICS, 2010, 11 (11) :773-785
[9]  
BARTON NH, 1989, ANNU REV GENET, V23, P337, DOI 10.1146/annurev.ge.23.120189.002005
[10]   Functional validation of new pathways in lipoprotein metabolism identified by human genetics [J].
Bauer, Robert C. ;
Stylianou, Ioannis M. ;
Rader, Daniel J. .
CURRENT OPINION IN LIPIDOLOGY, 2011, 22 (02) :123-128