作者
Kyle Ellrott, Matthew H Bailey, Gordon Saksena, Kyle R Covington, Cyriac Kandoth, Chip Stewart, Julian Hess, Singer Ma, Kami E Chiotti, Michael McLellan, Heidi J Sofia, Carolyn Hutter, Gad Getz, David Wheeler, Li Ding, Samantha J Caesar-Johnson, John A Demchok, Ina Felau, Melpomeni Kasapi, Martin L Ferguson, Carolyn M Hutter, Roy Tarnuzzer, Zhining Wang, Liming Yang, Jean C Zenklusen, Jiashan Julia Zhang, Sudha Chudamani, Jia Liu, Laxmi Lolla, Rashi Naresh, Todd Pihl, Qiang Sun, Yunhu Wan, Ye Wu, Juok Cho, Timothy DeFreitas, Scott Frazer, Nils Gehlenborg, David I Heiman, Jaegil Kim, Michael S Lawrence, Pei Lin, Sam Meier, Michael S Noble, Doug Voet, Hailei Zhang, Brady Bernard, Nyasha Chambwe, Varsha Dhankani, Theo Knijnenburg, Roger Kramer, Kalle Leinonen, Yuexin Liu, Michael Miller, Sheila Reynolds, Ilya Shmulevich, Vesteinn Thorsson, Wei Zhang, Rehan Akbani, Bradley M Broom, Apurva M Hegde, Zhenlin Ju, Rupa S Kanchi, Anil Korkut, Jun Li, Han Liang, Shiyun Ling, Wenbin Liu, Yiling Lu, Gordon B Mills, Kwok-Shing Ng, Arvind Rao, Michael Ryan, Jing Wang, John N Weinstein, Jiexin Zhang, Adam Abeshouse, Joshua Armenia, Debyani Chakravarty, Walid K Chatila, Ino de Bruijn, Jianjiong Gao, Benjamin E Gross, Zachary J Heins, Ritika Kundra, Konnor La, Marc Ladanyi, Augustin Luna, Moriah G Nissan, Angelica Ochoa, Sarah M Phillips, Ed Reznik, Francisco Sanchez-Vega, Chris Sander, Nikolaus Schultz, Robert Sheridan, S Onur Sumer, Yichao Sun, Barry S Taylor, Jioajiao Wang, Hongxin Zhang, Pavana Anur, Myron Peto, Paul Spellman, Christopher Benz, Joshua M Stuart, Christopher K Wong, Christina Yau, D Neil Hayes, Matthew D Wilkerson, Adrian Ally, Miruna Balasundaram, Reanne Bowlby, Denise Brooks, Rebecca Carlsen, Eric Chuah, Noreen Dhalla, Robert Holt, Steven JM Jones, Katayoon Kasaian, Darlene Lee, Yussanne Ma, Marco A Marra, Michael Mayo, Richard A Moore, Andrew J Mungall, Karen Mungall, A Gordon Robertson, Sara Sadeghi, Jacqueline E Schein, Payal Sipahimalani, Angela Tam, Nina Thiessen, Kane Tse, Tina Wong, Ashton C Berger, Rameen Beroukhim, Andrew D Cherniack, Carrie Cibulskis, Stacey B Gabriel, Galen F Gao, Gavin Ha, Matthew Meyerson, Steven E Schumacher, Juliann Shih, Melanie H Kucherlapati, Raju S Kucherlapati, Stephen Baylin, Leslie Cope, Ludmila Danilova
发表日期
2018/3/28
期刊
Cell systems
卷号
6
期号
3
页码范围
271-281. e7
出版商
Elsevier
简介
The Cancer Genome Atlas (TCGA) cancer genomics dataset includes over 10,000 tumor-normal exome pairs across 33 different cancer types, in total >400 TB of raw data files requiring analysis. Here we describe the Multi-Center Mutation Calling in Multiple Cancers project, our effort to generate a comprehensive encyclopedia of somatic mutation calls for the TCGA data to enable robust cross-tumor-type analyses. Our approach accounts for variance and batch effects introduced by the rapid advancement of DNA extraction, hybridization-capture, sequencing, and analysis methods over time. We present best practices for applying an ensemble of seven mutation-calling algorithms with scoring and artifact filtering. The dataset created by this analysis includes 3.5 million somatic variants and forms the basis for PanCan Atlas papers. The results have been made available to the research community along with the …
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