Genetic association analysis of copy-number variation (CNV) in human disease pathogenesis

被引:144
作者
Ionita-Laza, Iuliana [2 ]
Rogers, Angela J. [3 ,4 ]
Lange, Christoph [2 ,3 ,4 ]
Raby, Benjamin A. [3 ,4 ]
Lee, Charles [1 ]
机构
[1] Harvard Univ, Brigham & Womens Hosp, Sch Med, Dept Pathol, Boston, MA 02115 USA
[2] Harvard Univ, Sch Publ Hlth, Dept Biostat, Boston, MA 02115 USA
[3] Harvard Univ, Brigham & Womens Hosp, Sch Med, Div Pulm & Crit Care Med,Channing Lab, Boston, MA 02115 USA
[4] Harvard Univ, Brigham & Womens Hosp, Sch Med, Ctr Genom Med, Boston, MA 02115 USA
关键词
Copy-number variation; CNV; Structural genetic variation; Disease association study; Complex trait; GENOME-WIDE ASSOCIATION; FAMILY-BASED ASSOCIATION; FACTOR-H POLYMORPHISM; STRUCTURAL VARIATION; FINE-SCALE; SUSCEPTIBILITY; VARIANTS; RISK; PREDISPOSES; SELECTION;
D O I
10.1016/j.ygeno.2008.08.012
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Structural genetic variation, including copy-number variation (CNV), constitutes a substantial fraction of total genetic variability and the importance of structural genetic variants in modulating human disease is increasingly being recognized. Early successes in identifying disease-associated CNVs via a candidate gene approach mandate that future disease association studies need to include structural genetic variation. Such analyses should not rely on previously developed methodologies that were designed to evaluate single nucleotide polymorphisms (SNPs). Instead, development of novel technical, statistical, and epidemiologic methods will be necessary to optimally capture this newly-appreciated form of genetic variation in a meaningful manner. (C) 2008 Elsevier Inc. All rights reserved.
引用
收藏
页码:22 / 26
页数:5
相关论文
共 55 条
[1]   Copy number polymorphism in Fcgr3 predisposes to glomerulonephritis in rats and humans [J].
Aitman, TJ ;
Dong, R ;
Vyse, TJ ;
Norsworthy, PJ ;
Johnson, MD ;
Smith, J ;
Mangion, J ;
Roberton-Lowe, C ;
Marshall, AJ ;
Petretto, E ;
Hodges, MD ;
Bhangal, G ;
Patel, SG ;
Sheehan-Rooney, K ;
Duda, M ;
Cook, PR ;
Evans, DJ ;
Domin, J ;
Flint, J ;
Boyle, JJ ;
Pusey, CD ;
Cook, HT .
NATURE, 2006, 439 (7078) :851-855
[2]   Possible gene dosage effect of glutathione-S-transferases on atopic asthma: Using real-time PCR for quantification of GSTM1 and GSTT1 gene copy numbers [J].
Brasch-Andersen, C ;
Christiansen, L ;
Tan, QH ;
Haagerup, A ;
Vestbo, J ;
Kruse, TA .
HUMAN MUTATION, 2004, 24 (03) :208-214
[3]   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
[4]   Methods and strategies for analyzing copy number variation using DNA microarrays [J].
Carter, Nigel P. .
NATURE GENETICS, 2007, 39 (Suppl 7) :S16-S21
[5]   High resolution microarray comparative genomic hybridisation analysis using spotted oligonucleotides [J].
Carvalho, B ;
Ouwerkerk, E ;
Meijer, GA ;
Ylstra, B .
JOURNAL OF CLINICAL PATHOLOGY, 2004, 57 (06) :644-646
[6]  
Cherniack R, 1999, CONTROL CLIN TRIALS, V20, P91
[7]   The population genetics of structural variation [J].
Conrad, Donald F. ;
Hurles, Matthew E. .
NATURE GENETICS, 2007, 39 (Suppl 7) :S30-S36
[8]   Mutational and selective effects on copy-number variants in the human genome [J].
Cooper, Gregory M. ;
Nickerson, Deborah A. ;
Eichler, Evan E. .
NATURE GENETICS, 2007, 39 (Suppl 7) :S22-S29
[9]   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
[10]   Genome-wide association study identifies novel breast cancer susceptibility loci [J].
Easton, Douglas F. ;
Pooley, Karen A. ;
Dunning, Alison M. ;
Pharoah, Paul D. P. ;
Thompson, Deborah ;
Ballinger, Dennis G. ;
Struewing, Jeffery P. ;
Morrison, Jonathan ;
Field, Helen ;
Luben, Robert ;
Wareham, Nicholas ;
Ahmed, Shahana ;
Healey, Catherine S. ;
Bowman, Richard ;
Meyer, Kerstin B. ;
Haiman, Christopher A. ;
Kolonel, Laurence K. ;
Henderson, Brian E. ;
Le Marchand, Loic ;
Brennan, Paul ;
Sangrajrang, Suleeporn ;
Gaborieau, Valerie ;
Odefrey, Fabrice ;
Shen, Chen-Yang ;
Wu, Pei-Ei ;
Wang, Hui-Chun ;
Eccles, Diana ;
Evans, D. Gareth ;
Peto, Julian ;
Fletcher, Olivia ;
Johnson, Nichola ;
Seal, Sheila ;
Stratton, Michael R. ;
Rahman, Nazneen ;
Chenevix-Trench, Georgia ;
Bojesen, Stig E. ;
Nordestgaard, Borge G. ;
Axelsson, Christen K. ;
Garcia-Closas, Montserrat ;
Brinton, Louise ;
Chanock, Stephen ;
Lissowska, Jolanta ;
Peplonska, Beata ;
Nevanlinna, Heli ;
Fagerholm, Rainer ;
Eerola, Hannaleena ;
Kang, Daehee ;
Yoo, Keun-Young ;
Noh, Dong-Young ;
Ahn, Sei-Hyun .
NATURE, 2007, 447 (7148) :1087-U7