A decade of structural variants: description, history and methods to detect structural variation.

作者: Geòrgia Escaramís , Elisa Docampo , Raquel Rabionet

DOI: 10.1093/BFGP/ELV014

关键词:

摘要: In the past decade, view on genomic structural variation (SV) has been changed completely. SVs, previously considered rare events, are now recognized as largest source of interindividual genetic affecting more bases than single nucleotide polymorphisms, variable number tandem repeats and other small variants. They have also shown to play a role in phenotypic disease. this review, authors will provide an introduction SV; short historical perspective research variation; description types variants, how they may arisen; overview methods detecting focusing analysis high-throughput sequencing data.

参考文章(136)
F B Moore, M W Shaw, A P Craig-Holmes, Polymorphism of human C-band heterochromatin. I. Frequency of variants. American Journal of Human Genetics. ,vol. 25, pp. 181- 192 ,(1973)
Lucy R Osborne, Martin Li, Barbara Pober, David Chitayat, Joann Bodurtha, Ariane Mandel, Teresa Costa, Theresa Grebe, Sarah Cox, Lap-Chee Tsui, Stephen W Scherer, None, A 1.5 million-base pair inversion polymorphism in families with Williams-Beuren syndrome. Nature Genetics. ,vol. 29, pp. 321- 325 ,(2001) , 10.1038/NG753
SE Antonarakis, JP Rossiter, M Young, J Horst, P de Moerloose, SS Sommer, RP Ketterling, HH Jr Kazazian, C Negrier, C Vinciguerra, Factor VIII gene inversions in severe hemophilia A: results of an international consortium study Blood. ,vol. 86, pp. 2206- 2212 ,(1995) , 10.1182/BLOOD.V86.6.2206.BLOODJOURNAL8662206
Carl EG Bruder, Arkadiusz Piotrowski, Antoinet ACJ Gijsbers, Robin Andersson, Stephen Erickson, Teresita Diaz de Ståhl, Uwe Menzel, Johanna Sandgren, Desiree Von Tell, Andrzej Poplawski, Michael Crowley, Chiquito Crasto, E Christopher Partridge, Hemant Tiwari, David B Allison, Jan Komorowski, Gert-Jan B Van Ommen, Dorret I Boomsma, Nancy L Pedersen, Johan T Den Dunnen, Karin Wirdefeldt, Jan P Dumanski, None, Phenotypically Concordant and Discordant Monozygotic Twins Display Different DNA Copy-Number-Variation Profiles American Journal of Human Genetics. ,vol. 82, pp. 763- 771 ,(2008) , 10.1016/J.AJHG.2007.12.011
Binnaz Yalcin, Kim Wong, Avigail Agam, Martin Goodson, Thomas M. Keane, Xiangchao Gan, Christoffer Nellåker, Leo Goodstadt, Jérôme Nicod, Amarjit Bhomra, Polinka Hernandez-Pliego, Helen Whitley, James Cleak, Rebekah Dutton, Deborah Janowitz, Richard Mott, David J. Adams, Jonathan Flint, Sequence-based characterization of structural variation in the mouse genome. Nature. ,vol. 477, pp. 326- 329 ,(2011) , 10.1038/NATURE10432
Anne Rovelet-Lecrux, Didier Hannequin, Gregory Raux, Nathalie Le Meur, Annie Laquerrière, Anne Vital, Cécile Dumanchin, Sébastien Feuillette, Alexis Brice, Martine Vercelletto, Frédéric Dubas, Thierry Frebourg, Dominique Campion, APP locus duplication causes autosomal dominant early-onset Alzheimer disease with cerebral amyloid angiopathy Nature Genetics. ,vol. 38, pp. 24- 26 ,(2006) , 10.1038/NG1718
Jonathan Sebat, B Lakshmi, Dheeraj Malhotra, Jennifer Troge, Christa Lese-Martin, Tom Walsh, Boris Yamrom, Seungtai Yoon, Alex Krasnitz, Jude Kendall, Anthony Leotta, Deepa Pai, Ray Zhang, Yoon-Ha Lee, James Hicks, Sarah J Spence, Annette T Lee, Kaija Puura, Terho Lehtimäki, David Ledbetter, Peter K Gregersen, Joel Bregman, James S Sutcliffe, Vaidehi Jobanputra, Wendy Chung, Dorothy Warburton, Mary-Claire King, David Skuse, Daniel H Geschwind, T Conrad Gilliam, Kenny Ye, Michael Wigler, None, Strong Association of De Novo Copy Number Mutations with Autism Science. ,vol. 316, pp. 445- 449 ,(2007) , 10.1126/SCIENCE.1138659
Geòrgia Escaramís, Cristian Tornador, Laia Bassaganyas, Raquel Rabionet, Jose M. C. Tubio, Alexander Martínez-Fundichely, Mario Cáceres, Marta Gut, Stephan Ossowski, Xavier Estivill, PeSV-Fisher: Identification of Somatic and Non-Somatic Structural Variants Using Next Generation Sequencing Data PLOS ONE. ,vol. 8, ,(2013) , 10.1371/JOURNAL.PONE.0063377
Jacob J Michaelson, Jonathan Sebat, forestSV: structural variant discovery through statistical learning Nature Methods. ,vol. 9, pp. 819- 821 ,(2012) , 10.1038/NMETH.2085
D. O. Ferguson, J. M. Sekiguchi, S. Chang, K. M. Frank, Y. Gao, R. A. DePinho, F. W. Alt, The nonhomologous end-joining pathway of DNA repair is required for genomic stability and the suppression of translocations. Proceedings of the National Academy of Sciences of the United States of America. ,vol. 97, pp. 6630- 6633 ,(2000) , 10.1073/PNAS.110152897