Driver Fusions and Their Implications in the Development and Treatment of Human Cancers
作者： Qingsong Gao , Wen-Wei Liang , Steven M Foltz , Gnanavel Mutharasu , Reyka G Jayasinghe
DOI: 10.1016/J.CELREP.2018.03.050
关键词: Oncogene Proteins 、 Carcinogenesis 、 Oncogene Fusion 、 TMPRSS2 、 Gene 、 Protein kinase domain 、 Cancer research 、 Biology 、 Cancer 、 Somatic cell
摘要: Gene fusions represent an important class of somatic alterations in cancer. We systematically investigated 9,624 tumors across 33 cancer types using multiple fusion calling tools. identified a total 25,664 fusions, with 63% validation rate. Integration gene expression, copy number, and annotation data revealed that involving oncogenes tend to exhibit increased whereas tumor suppressors have the opposite effect. For kinases, we found 1,275 intact kinase domain, proportion which varied significantly types. Our study suggests drive development 16.5% cases function as sole driver more than 1% them. Finally, druggable genes such TMPRSS2, RET, FGFR3, ALK, ESR1 6.0% cases, predicted immunogenic peptides, suggesting may provide leads for targeted drug immune therapy.
uq.edu.au
core.ac.uk
elsevier.com参考文章(45)
Cancer Genome Atlas Research Network, None, Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia The New England Journal of Medicine. ,vol. 368, pp. 2059- 2074 ,(2013) , 10.1056/NEJMOA1301689
A Sinclair, A L Latif, T L Holyoake, Targeting survival pathways in chronic myeloid leukaemia stem cells British Journal of Pharmacology. ,vol. 169, pp. 1693- 1707 ,(2013) , 10.1111/BPH.12183
Linghua Wang, Shigeru Yamaguchi, Matthew D. Burstein, Keita Terashima, Kyle Chang, Ho-Keung Ng, Hideo Nakamura, Zongxiao He, Harshavardhan Doddapaneni, Lora Lewis, Mark Wang, Tomonari Suzuki, Ryo Nishikawa, Atsushi Natsume, Shunsuke Terasaka, Robert Dauser, William Whitehead, Adesina Adekunle, Jiayi Sun, Yi Qiao, Gábor Marth, Donna M. Muzny, Richard A. Gibbs, Suzanne M. Leal, David A. Wheeler, Ching C. Lau, Novel somatic and germline mutations in intracranial germ cell tumours Nature. ,vol. 511, pp. 241- 245 ,(2014) , 10.1038/NATURE13296
D. Singh, J. M. Chan, P. Zoppoli, F. Niola, R. Sullivan, A. Castano, E. M. Liu, J. Reichel, P. Porrati, S. Pellegatta, K. Qiu, Z. Gao, M. Ceccarelli, R. Riccardi, D. J. Brat, A. Guha, K. Aldape, J. G. Golfinos, D. Zagzag, T. Mikkelsen, G. Finocchiaro, A. Lasorella, R. Rabadan, A. Iavarone, Transforming fusions of FGFR and TACC genes in human glioblastoma Science. ,vol. 337, pp. 1231- 1235 ,(2012) , 10.1126/SCIENCE.1220834
Ruibao Ren, Mechanisms of BCR-ABL in the pathogenesis of chronic myelogenous leukaemia. Nature Reviews Cancer. ,vol. 5, pp. 172- 183 ,(2005) , 10.1038/NRC1567
Sónia Moniz, Peter Jordan, Emerging roles for WNK kinases in cancer Cellular and Molecular Life Sciences. ,vol. 67, pp. 1265- 1276 ,(2010) , 10.1007/S00018-010-0261-6
John Lonsdale, Jeffrey Thomas, Mike Salvatore, Rebecca Phillips, Edmund Lo, Saboor Shad, Richard Hasz, Gary Walters, Fernando Garcia, Nancy Young, Barbara Foster, Mike Moser, Ellen Karasik, Bryan Gillard, Kimberley Ramsey, Susan Sullivan, Jason Bridge, Harold Magazine, John Syron, Johnelle Fleming, Laura Siminoff, Heather Traino, Maghboeba Mosavel, Laura Barker, Scott Jewell, Dan Rohrer, Dan Maxim, Dana Filkins, Philip Harbach, Eddie Cortadillo, Bree Berghuis, Lisa Turner, Eric Hudson, Kristin Feenstra, Leslie Sobin, James Robb, Phillip Branton, Greg Korzeniewski, Charles Shive, David Tabor, Liqun Qi, Kevin Groch, Sreenath Nampally, Steve Buia, Angela Zimmerman, Anna Smith, Robin Burges, Karna Robinson, Kim Valentino, Deborah Bradbury, Mark Cosentino, Norma Diaz-Mayoral, Mary Kennedy, Theresa Engel, Penelope Williams, Kenyon Erickson, Kristin Ardlie, Wendy Winckler, Gad Getz, David DeLuca, Daniel MacArthur, Manolis Kellis, Alexander Thomson, Taylor Young, Ellen Gelfand, Molly Donovan, Yan Meng, George Grant, Deborah Mash, Yvonne Marcus, Margaret Basile, Jun Liu, Jun Zhu, Zhidong Tu, Nancy J Cox, Dan L Nicolae, Eric R Gamazon, Hae Kyung Im, Anuar Konkashbaev, Jonathan Pritchard, Matthew Stevens, Timothèe Flutre, Xiaoquan Wen, Emmanouil T Dermitzakis, Tuuli Lappalainen, Roderic Guigo, Jean Monlong, Michael Sammeth, Daphne Koller, Alexis Battle, Sara Mostafavi, Mark McCarthy, Manual Rivas, Julian Maller, Ivan Rusyn, Andrew Nobel, Fred Wright, Andrey Shabalin, Mike Feolo, Nataliya Sharopova, Anne Sturcke, Justin Paschal, James M Anderson, Elizabeth L Wilder, Leslie K Derr, Eric D Green, Jeffery P Struewing, Gary Temple, Simona Volpi, Joy T Boyer, Elizabeth J Thomson, Mark S Guyer, Cathy Ng, Assya Abdallah, Deborah Colantuoni, Thomas R Insel, Susan E Koester, A Roger Little, Patrick K Bender, Thomas Lehner, Yin Yao, Carolyn C Compton, Jimmie B Vaught, Sherilyn Sawyer, Nicole C Lockhart, Joanne Demchok, Helen F Moore, The Genotype-Tissue Expression (GTEx) project Nature Genetics. ,vol. 45, pp. 580- 585 ,(2013) , 10.1038/NG.2653
Cyriac Kandoth, Michael D McLellan, Fabio Vandin, Kai Ye, Beifang Niu, Charles Lu, Mingchao Xie, Qunyuan Zhang, Joshua F McMichael, Matthew A Wyczalkowski, Mark DM Leiserson, Christopher A Miller, John S Welch, Matthew J Walter, Michael C Wendl, Timothy J Ley, Richard K Wilson, Benjamin J Raphael, Li Ding, None, Mutational landscape and significance across 12 major cancer types Nature. ,vol. 502, pp. 333- 339 ,(2013) , 10.1038/NATURE12634
Nallasivam Palanisamy, Bushra Ateeq, Shanker Kalyana-Sundaram, Dorothee Pflueger, Kalpana Ramnarayanan, Sunita Shankar, Bo Han, Qi Cao, Xuhong Cao, Khalid Suleman, Chandan Kumar-Sinha, Saravana M Dhanasekaran, Ying-bei Chen, Raquel Esgueva, Samprit Banerjee, Christopher J LaFargue, Javed Siddiqui, Francesca Demichelis, Peter Moeller, Tarek A Bismar, Rainer Kuefer, Douglas R Fullen, Timothy M Johnson, Joel K Greenson, Thomas J Giordano, Patrick Tan, Scott A Tomlins, Sooryanarayana Varambally, Mark A Rubin, Christopher A Maher, Arul M Chinnaiyan, Rearrangements of the RAF Kinase Pathway in Prostate Cancer, Gastric Cancer and Melanoma Nature Medicine. ,vol. 16, pp. 793- 798 ,(2010) , 10.1038/NM.2166
Adam J Bass, Michael S Lawrence, Lear E Brace, Alex H Ramos, Yotam Drier, Kristian Cibulskis, Carrie Sougnez, Douglas Voet, Gordon Saksena, Andrey Sivachenko, Rui Jing, Melissa Parkin, Trevor Pugh, Roel G Verhaak, Nicolas Stransky, Adam T Boutin, Jordi Barretina, David B Solit, Evi Vakiani, Wenlin Shao, Yuji Mishina, Markus Warmuth, Jose Jimenez, Derek Y Chiang, Sabina Signoretti, William G Kaelin, Nicole Spardy, William C Hahn, Yujin Hoshida, Shuji Ogino, Ronald A DePinho, Lynda Chin, Levi A Garraway, Charles S Fuchs, Jose Baselga, Josep Tabernero, Stacey Gabriel, Eric S Lander, Gad Getz, Matthew Meyerson, None, Genomic sequencing of colorectal adenocarcinomas identifies a recurrent VTI1A - TCF7L2 fusion Nature Genetics. ,vol. 43, pp. 964- 968 ,(2011) , 10.1038/NG.936