Copy number alterations unmasked as enhancer hijackers

被引:31
作者
Beroukhim, Rameen [1 ,2 ]
Zhang, Xiaoyang [1 ,2 ]
Meyerson, Matthew [1 ,2 ]
机构
[1] Broad Inst Harvard & MIT, Dana Farber Canc Inst, Boston, MA USA
[2] Harvard Med Sch, Boston, MA USA
关键词
PROSTATE-CANCER; GENE; NEIGHBORHOODS;
D O I
10.1038/ng.3754
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Our understanding of how DNA copy number changes contribute to disease, including cancer, has to a large degree been focused on the changes in gene dosage that they generate and has neglected the effects of the DNA rearrangements that lead to their formation. A new study reports an innovative analytical framework for copy number alterations that are oncogenic primarily owing to the genomic rearrangements that underlie them.
引用
收藏
页码:5 / 6
页数:2
相关论文
共 15 条
[1]   Punctuated Evolution of Prostate Cancer Genomes [J].
Baca, Sylvan C. ;
Prandi, Davide ;
Lawrence, Michael S. ;
Mosquera, Juan Miguel ;
Romanel, Alessandro ;
Drier, Yotam ;
Park, Kyung ;
Kitabayashi, Naoki ;
MacDonald, Theresa Y. ;
Ghandi, Mahmoud ;
Van Allen, Eliezer ;
Kryukov, Gregory V. ;
Sboner, Andrea ;
Theurillat, Jean-Philippe ;
Soong, T. David ;
Nickerson, Elizabeth ;
Auclair, Daniel ;
Tewari, Ashutosh ;
Beltran, Himisha ;
Onofrio, Robert C. ;
Boysen, Gunther ;
Guiducci, Candace ;
Barbieri, Christopher E. ;
Cibulskis, Kristian ;
Sivachenko, Andrey ;
Carter, Scott L. ;
Saksena, Gordon ;
Voet, Douglas ;
Ramos, Alex H. ;
Winckler, Wendy ;
Cipicchio, Michelle ;
Ardlie, Kristin ;
Kantoff, Philip W. ;
Berger, Michael F. ;
Gabriel, Stacey B. ;
Golub, Todd R. ;
Meyerson, Matthew ;
Lander, Eric S. ;
Elemento, Olivier ;
Getz, Gad ;
Demichelis, Francesca ;
Rubin, Mark A. ;
Garraway, Levi A. .
CELL, 2013, 153 (03) :666-677
[2]   MYB-QKI rearrangements in angiocentric glioma drive tumorigenicity through a tripartite mechanism [J].
Bandopadhayay, Pratiti ;
Ramkissoon, Lori A. ;
Jain, Payal ;
Bergthold, Guillaume ;
Wala, Jeremiah ;
Zeid, Rhamy ;
Schumacher, Steven E. ;
Urbanski, Laura ;
O'Rourke, Ryan ;
Gibson, William J. ;
Pelton, Kristine ;
Ramkissoon, Shakti H. ;
Han, Harry J. ;
Zhu, Yuankun ;
Choudhari, Namrata ;
Silva, Amanda ;
Boucher, Katie ;
Henn, Rosemary E. ;
Kang, Yun Jee ;
Knoff, David ;
Paolella, Brenton R. ;
Gladden-Young, Adrianne ;
Varlet, Pascale ;
Pages, Melanie ;
Horowitz, Peleg M. ;
Federation, Alexander ;
Malkin, Hayley ;
Tracy, Adam A. ;
Seepo, Sara ;
Ducar, Matthew ;
Van Hummelen, Paul ;
Santi, Mariarita ;
Buccoliero, Anna Maria ;
Scagnet, Mirko ;
Bowers, Daniel C. ;
Giannini, Caterina ;
Puget, Stephanie ;
Hawkins, Cynthia ;
Tabori, Uri ;
Klekner, Almos ;
Bognar, Laszlo ;
Burger, Peter C. ;
Eberhart, Charles ;
Rodriguez, Fausto J. ;
Hill, D. Ashley ;
Mueller, Sabine ;
Haas-Kogan, Daphne A. ;
Phillips, Joanna J. ;
Santagata, Sandro ;
Stiles, Charles D. .
NATURE GENETICS, 2016, 48 (03) :273-282
[3]   THE HUMAN C-MYC-ONCOGENE - STRUCTURAL CONSEQUENCES OF TRANSLOCATION INTO THE IGH LOCUS IN BURKITT-LYMPHOMA [J].
BATTEY, J ;
MOULDING, C ;
TAUB, R ;
MURPHY, W ;
STEWART, T ;
POTTER, H ;
LENOIR, G ;
LEDER, P .
CELL, 1983, 34 (03) :779-787
[4]   A Single Oncogenic Enhancer Rearrangement Causes Concomitant EVI1 and GATA2 Deregulation in Leukemia [J].
Groeschel, Stefan ;
Sanders, Mathijs A. ;
Hoogenboezem, Remco ;
de Wit, Elzo ;
Bouwman, Britta A. M. ;
Erpelinck, Claudia ;
van der Velden, Vincent H. J. ;
Havermans, Marije ;
Avellino, Roberto ;
van Lom, Kirsten ;
Rombouts, Elwin J. ;
van Duin, Mark ;
Doehner, Konstanze ;
Beverloo, H. Berna ;
Bradner, James E. ;
Doehner, Hartmut ;
Lowenberg, Bob ;
Valk, Peter J. M. ;
Bindels, Eric M. J. ;
de Laat, Wouter ;
Delwel, Ruud .
CELL, 2014, 157 (02) :369-381
[5]   Insulated Neighborhoods: Structural and Functional Units of Mammalian Gene Control [J].
Hnisz, Denes ;
Day, Daniel S. ;
Young, Richard A. .
CELL, 2016, 167 (05) :1188-1200
[6]   Activation of proto-oncogenes by disruption of chromosome neighborhoods [J].
Hnisz, Denes ;
Weintraub, Abraham S. ;
Day, Daniel S. ;
Valton, Anne-Laure ;
Bak, Rasmus O. ;
Li, Charles H. ;
Goldmann, Johanna ;
Lajoie, Bryan R. ;
Fan, Zi Peng ;
Sigova, Alla A. ;
Reddy, Jessica ;
Borges-Rivera, Diego ;
Lee, Tong Ihn ;
Jaenisch, Rudolf ;
Porteus, Matthew H. ;
Dekker, Job ;
Young, Richard A. .
SCIENCE, 2016, 351 (6280) :1454-1458
[7]   Comprehensive molecular characterization of human colon and rectal cancer [J].
Muzny, Donna M. ;
Bainbridge, Matthew N. ;
Chang, Kyle ;
Dinh, Huyen H. ;
Drummond, Jennifer A. ;
Fowler, Gerald ;
Kovar, Christie L. ;
Lewis, Lora R. ;
Morgan, Margaret B. ;
Newsham, Irene F. ;
Reid, Jeffrey G. ;
Santibanez, Jireh ;
Shinbrot, Eve ;
Trevino, Lisa R. ;
Wu, Yuan-Qing ;
Wang, Min ;
Gunaratne, Preethi ;
Donehower, Lawrence A. ;
Creighton, Chad J. ;
Wheeler, David A. ;
Gibbs, Richard A. ;
Lawrence, Michael S. ;
Voet, Douglas ;
Jing, Rui ;
Cibulskis, Kristian ;
Sivachenko, Andrey ;
Stojanov, Petar ;
McKenna, Aaron ;
Lander, Eric S. ;
Gabriel, Stacey ;
Getz, Gad ;
Ding, Li ;
Fulton, Robert S. ;
Koboldt, Daniel C. ;
Wylie, Todd ;
Walker, Jason ;
Dooling, David J. ;
Fulton, Lucinda ;
Delehaunty, Kim D. ;
Fronick, Catrina C. ;
Demeter, Ryan ;
Mardis, Elaine R. ;
Wilson, Richard K. ;
Chu, Andy ;
Chun, Hye-Jung E. ;
Mungall, Andrew J. ;
Pleasance, Erin ;
Robertson, A. Gordon ;
Stoll, Dominik ;
Balasundaram, Miruna .
NATURE, 2012, 487 (7407) :330-337
[8]   Enhancer hijacking activates GFI1 family oncogenes in medulloblastoma [J].
Northcott, Paul A. ;
Lee, Catherine ;
Zichner, Thomas ;
Stuetz, Adrian M. ;
Erkek, Serap ;
Kawauchi, Daisuke ;
Shih, David J. H. ;
Hovestadt, Volker ;
Zapatka, Marc ;
Sturm, Dominik ;
Jones, David T. W. ;
Kool, Marcel ;
Remke, Marc ;
Cavalli, Florence M. G. ;
Zuyderduyn, Scott ;
Bader, Gary D. ;
VandenBerg, Scott ;
Esparza, Lourdes Adriana ;
Ryzhova, Marina ;
Wang, Wei ;
Wittmann, Andrea ;
Stark, Sebastian ;
Sieber, Laura ;
Seker-Cin, Huriye ;
Linke, Linda ;
Kratochwil, Fabian ;
Jaeger, Natalie ;
Buchhalter, Ivo ;
Imbusch, Charles D. ;
Zipprich, Gideon ;
Raeder, Benjamin ;
Schmidt, Sabine ;
Diessl, Nicolle ;
Wolf, Stephan ;
Wiemann, Stefan ;
Brors, Benedikt ;
Lawerenz, Chris ;
Eils, Juergen ;
Warnatz, Hans-Joerg ;
Risch, Thomas ;
Yaspo, Marie-Laure ;
Weber, Ursula D. ;
Bartholomae, Cynthia C. ;
von Kalle, Christof ;
Turanyi, Eszter ;
Hauser, Peter ;
Sanden, Emma ;
Darabi, Anna ;
Siesjoe, Peter ;
Sterba, Jaroslav .
NATURE, 2014, 511 (7510) :428-+
[9]   Enhancer function: new insights into the regulation of tissue-specific gene expression [J].
Ong, Chin-Tong ;
Corces, Victor G. .
NATURE REVIEWS GENETICS, 2011, 12 (04) :283-293
[10]   Massive Genomic Rearrangement Acquired in a Single Catastrophic Event during Cancer Development [J].
Stephens, Philip J. ;
Greenman, Chris D. ;
Fu, Beiyuan ;
Yang, Fengtang ;
Bignell, Graham R. ;
Mudie, Laura J. ;
Pleasance, Erin D. ;
Lau, King Wai ;
Beare, David ;
Stebbings, Lucy A. ;
McLaren, Stuart ;
Lin, Meng-Lay ;
McBride, David J. ;
Varela, Ignacio ;
Nik-Zainal, Serena ;
Leroy, Catherine ;
Jia, Mingming ;
Menzies, Andrew ;
Butler, Adam P. ;
Teague, Jon W. ;
Quail, Michael A. ;
Burton, John ;
Swerdlow, Harold ;
Carter, Nigel P. ;
Morsberger, Laura A. ;
Iacobuzio-Donahue, Christine ;
Follows, George A. ;
Green, Anthony R. ;
Flanagan, Adrienne M. ;
Stratton, Michael R. ;
Futreal, P. Andrew ;
Campbell, Peter J. .
CELL, 2011, 144 (01) :27-40