Current Massively Parallel Sequencing Technologies: Platforms and Reporting Considerations

作者: John R. ten Bosch , Wayne W. Grody

DOI: 10.1007/978-1-4939-0727-4_1

关键词:

摘要: DNA sequencing has recently undergone a dramatic transformation in speed and throughput. Instead of the traditional approach one small (150–200 bp) region at time, using specific pair complementary primers targeted to just that area interest, new platforms utilize shotgun approach, randomly shearing entire genome into over 300 million fragments, each them repeatedly parallel, then reconstructing resulting sequences, sophisticated computer software, complete genome. This “next-generation” or “massively parallel” (NGS) technology truly been “game-changer”, allowing for practical timely large panels genes, all coding regions (the exome), whole itself clinical setting. chapter reviews major NGS currently use, as well interpretive ethical challenges involved filtering through countless sequence variants observed generate meaningful report.

参考文章(67)
Elizabeth A. Trachtenberg, Cherie L. Holcomb, Next-Generation HLA Sequencing Using the 454 GS FLX System Methods in Molecular Biology. ,vol. 1034, pp. 197- 219 ,(2013) , 10.1007/978-1-62703-493-7_10
John R. ten Bosch, Wayne W. Grody, Keeping Up With the Next Generation: Massively Parallel Sequencing in Clinical Diagnostics The Journal of Molecular Diagnostics. ,vol. 10, pp. 484- 492 ,(2008) , 10.2353/JMOLDX.2008.080027
Laura Clarke, Xiangqun Zheng-Bradley, Richard Smith, Eugene Kulesha, Chunlin Xiao, Iliana Toneva, Brendan Vaughan, Don Preuss, Rasko Leinonen, Martin Shumway, Stephen Sherry, Paul Flicek, 1000 Genomes Project Consortium, None, The 1000 Genomes Project: data management and community access Nature Methods. ,vol. 9, pp. 459- 462 ,(2012) , 10.1038/NMETH.1974
Thomas J Albert, Michael N Molla, Donna M Muzny, Lynne Nazareth, David Wheeler, Xingzhi Song, Todd A Richmond, Chris M Middle, Matthew J Rodesch, Charles J Packard, George M Weinstock, Richard A Gibbs, Direct selection of human genomic loci by microarray hybridization. Nature Methods. ,vol. 4, pp. 903- 905 ,(2007) , 10.1038/NMETH1111
Sarah B. Ng, Emily H. Turner, Peggy D. Robertson, Steven D. Flygare, Abigail W. Bigham, Choli Lee, Tristan Shaffer, Michelle Wong, Arindam Bhattacharjee, Evan E. Eichler, Michael Bamshad, Deborah A. Nickerson, Jay Shendure, Targeted capture and massively parallel sequencing of 12 human exomes Nature. ,vol. 461, pp. 272- 276 ,(2009) , 10.1038/NATURE08250
Prateek Kumar, Steven Henikoff, Pauline C Ng, Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm. Nature Protocols. ,vol. 4, pp. 1073- 1081 ,(2009) , 10.1038/NPROT.2009.86
André Altmann, Peter Weber, Daniel Bader, Michael Preuß, Elisabeth B. Binder, Bertram Müller-Myhsok, A beginners guide to SNP calling from high-throughput DNA-sequencing data Human Genetics. ,vol. 131, pp. 1541- 1554 ,(2012) , 10.1007/S00439-012-1213-Z
Jonathan M. Rothberg, Wolfgang Hinz, Todd M. Rearick, Jonathan Schultz, William Mileski, Mel Davey, John H. Leamon, Kim Johnson, Mark J. Milgrew, Matthew Edwards, Jeremy Hoon, Jan F. Simons, David Marran, Jason W. Myers, John F. Davidson, Annika Branting, John R. Nobile, Bernard P. Puc, David Light, Travis A. Clark, Martin Huber, Jeffrey T. Branciforte, Isaac B. Stoner, Simon E. Cawley, Michael Lyons, Yutao Fu, Nils Homer, Marina Sedova, Xin Miao, Brian Reed, Jeffrey Sabina, Erika Feierstein, Michelle Schorn, Mohammad Alanjary, Eileen Dimalanta, Devin Dressman, Rachel Kasinskas, Tanya Sokolsky, Jacqueline A. Fidanza, Eugeni Namsaraev, Kevin J. McKernan, Alan Williams, G. Thomas Roth, James Bustillo, An integrated semiconductor device enabling non-optical genome sequencing Nature. ,vol. 475, pp. 348- 352 ,(2011) , 10.1038/NATURE10242
Wayne W Grody, Garry R Cutting, Michael S Watson, The Cystic Fibrosis mutation "arms race": when less is more. Genetics in Medicine. ,vol. 9, pp. 739- 744 ,(2007) , 10.1097/GIM.0B013E318159A331