Next-generation sequencing applied to molecular diagnostics

被引:1
作者
Natrajan, Rachael [1 ]
Reis-Filho, Jorge S. [1 ]
机构
[1] Inst Canc Res, Breakthrough Breast Canc Res Ctr, London SW3 6JB, England
关键词
cancer; exome; fusion genes; genetics; massively parallel sequencing; mutations; third-generation sequencing; CELL LUNG-CANCER; TRANSCRIPTION FACTOR GENES; ESTROGEN-RECEPTOR-ALPHA; 1000 GENOMES PROJECT; SINGLE-MOLECULE; BREAST-CANCER; DNA METHYLATION; MICRORNA TRANSCRIPTOME; PROMOTER METHYLATION; ACQUIRED-RESISTANCE;
D O I
10.1586/ERM.11.18
中图分类号
R36 [病理学];
学科分类号
100104 ;
摘要
Next-generation sequencing technologies have begun to revolutionize the field of cancer genetics through rapid and accurate assessment of a patient's DNA makeup with minimal cost. These technologies have already led to the realization of the inter- and intra-tumor genetic heterogeneity and the identification of novel mutations and chimeric genes, however, several challenges lie ahead. Given the low number of recurrent somatic genetic aberrations in common types of cancer, the identification of 'driver' genetic aberrations has proven challenging. Furthermore, implementation of next-generation sequencing and/or some of its derivatives into routine practice as diagnostic tests will require in-depth understanding of the pitfalls of these technologies and a great degree of bioinformatic expertise. This article focuses on the contribution of next-generation sequencing technologies to diagnosis and cancer prognostication and prediction.
引用
收藏
页码:425 / 444
页数:20
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共 212 条
[1]   Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition [J].
Adey, Andrew ;
Morrison, Hilary G. ;
Asan ;
Xun, Xu ;
Kitzman, Jacob O. ;
Turner, Emily H. ;
Stackhouse, Bethany ;
MacKenzie, Alexandra P. ;
Caruccio, Nicholas C. ;
Zhang, Xiuqing ;
Shendure, Jay .
GENOME BIOLOGY, 2010, 11 (12)
[2]   A method and server for predicting damaging missense mutations [J].
Adzhubei, Ivan A. ;
Schmidt, Steffen ;
Peshkin, Leonid ;
Ramensky, Vasily E. ;
Gerasimova, Anna ;
Bork, Peer ;
Kondrashov, Alexey S. ;
Sunyaev, Shamil R. .
NATURE METHODS, 2010, 7 (04) :248-249
[3]   The first Korean genome sequence and analysis: Full genome sequencing for a socio-ethnic group [J].
Ahn, Sung-Min ;
Kim, Tae-Hyung ;
Lee, Sunghoon ;
Kim, Deokhoon ;
Ghang, Ho ;
Kim, Dae-Soo ;
Kim, Byoung-Chul ;
Kim, Sang-Yoon ;
Kim, Woo-Yeon ;
Kim, Chulhong ;
Park, Daeui ;
Lee, Yong Seok ;
Kim, Sangsoo ;
Reja, Rohit ;
Jho, Sungwoong ;
Kim, Chang Geun ;
Cha, Ji-Young ;
Kim, Kyung-Hee ;
Lee, Bonghee ;
Bhak, Jong ;
Kim, Seong-Jin .
GENOME RESEARCH, 2009, 19 (09) :1622-1629
[4]   A map of human genome variation from population-scale sequencing [J].
Altshuler, David ;
Durbin, Richard M. ;
Abecasis, Goncalo R. ;
Bentley, David R. ;
Chakravarti, Aravinda ;
Clark, Andrew G. ;
Collins, Francis S. ;
De la Vega, Francisco M. ;
Donnelly, Peter ;
Egholm, Michael ;
Flicek, Paul ;
Gabriel, Stacey B. ;
Gibbs, Richard A. ;
Knoppers, Bartha M. ;
Lander, Eric S. ;
Lehrach, Hans ;
Mardis, Elaine R. ;
McVean, Gil A. ;
Nickerson, DebbieA. ;
Peltonen, Leena ;
Schafer, Alan J. ;
Sherry, Stephen T. ;
Wang, Jun ;
Wilson, Richard K. ;
Gibbs, Richard A. ;
Deiros, David ;
Metzker, Mike ;
Muzny, Donna ;
Reid, Jeff ;
Wheeler, David ;
Wang, Jun ;
Li, Jingxiang ;
Jian, Min ;
Li, Guoqing ;
Li, Ruiqiang ;
Liang, Huiqing ;
Tian, Geng ;
Wang, Bo ;
Wang, Jian ;
Wang, Wei ;
Yang, Huanming ;
Zhang, Xiuqing ;
Zheng, Huisong ;
Lander, Eric S. ;
Altshuler, David L. ;
Ambrogio, Lauren ;
Bloom, Toby ;
Cibulskis, Kristian ;
Fennell, Tim J. ;
Gabriel, Stacey B. .
NATURE, 2010, 467 (7319) :1061-1073
[5]   Fusion genes in solid tumors [J].
Åman, P .
SEMINARS IN CANCER BIOLOGY, 1999, 9 (04) :303-318
[6]   Genetic variegation of clonal architecture and propagating cells in leukaemia [J].
Anderson, Kristina ;
Lutz, Christoph ;
van Delft, Frederik W. ;
Bateman, Caroline M. ;
Guo, Yanping ;
Colman, Susan M. ;
Kempski, Helena ;
Moorman, Anthony V. ;
Titley, Ian ;
Swansbury, John ;
Kearney, Lyndal ;
Enver, Tariq ;
Greaves, Mel .
NATURE, 2011, 469 (7330) :356-+
[7]   Acquired resistance to imatinib in gastrointestinal stromal tumor occurs through secondary gene mutation [J].
Antonescu, CR ;
Besmer, P ;
Guo, TH ;
Arkun, K ;
Hom, G ;
Koryotowski, B ;
Leversha, MA ;
Jeffrey, PD ;
Desantis, D ;
Singer, S ;
Brennan, MF ;
Maki, RG ;
DeMatteo, RP .
CLINICAL CANCER RESEARCH, 2005, 11 (11) :4182-4190
[8]   EWSR1-CREB1 is the predominant gene fusion in angiomatoid fibrous histiocytoma [J].
Antonescu, Cristina R. ;
Dal Cin, Paola ;
Nafa, Khedoudja ;
Teot, Lisa A. ;
Surti, Urvashi ;
Fletcher, Christopher D. ;
Ladanyi, Marc .
GENES CHROMOSOMES & CANCER, 2007, 46 (12) :1051-1060
[9]   EWSR1-POU5F1 Fusion in Soft Tissue Myoepithelial Tumors. A Molecular Analysis of Sixty-Six Cases, Including Soft Tissue, Bone, and Visceral Lesions, Showing Common Involvement of the EWSR1 gene [J].
Antonescu, Cristina R. ;
Zhang, Lei ;
Chang, Ning-En ;
Pawel, Bruce R. ;
Travis, William ;
Katabi, Nora ;
Edelman, Morris ;
Rosenberg, Andrew E. ;
Nielsen, G. Petur ;
Dal Cin, Paola ;
Fletcher, Christopher D. M. .
GENES CHROMOSOMES & CANCER, 2010, 49 (12) :1114-1124
[10]   Does massively parallel DNA resequencing signify the end of histopathology as we know it? [J].
Aparicio, Samuel A. J. R. ;
Huntsman, David G. .
JOURNAL OF PATHOLOGY, 2010, 220 (02) :307-315