Analysis of the association between CIMP and BRAF in colorectal cancer by DNA methylation profiling. by Toshinori Hinoue, Daniel J Weisenberger, Fei Pan, Mihaela Campan, Myungjin Kim, Joanne Young, Vicki L Whitehall, Barbara A Leggett, Peter W Laird

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Epigenetic subgroups of esophageal and gastric adenocarcinoma with differential GATA5 DNA methylation associated with clinical and lifestyle factors. by Xinhui Wang, Gyeong Hoon Kang, Mihaela Campan, Daniel J Weisenberger, Tiffany I Long, Wendy Cozen, Leslie Bernstein, Anna H Wu, Kimberly D Siegmund, Darryl Shibata, Peter W Laird

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Epigenetic analysis of KSHV latent and lytic genomes. by Zsolt Toth, Dennis T Maglinte, Sun Hwa Lee, Hye-Ra Lee, Lai-Yee Wong, Kevin F Brulois, Stacy Lee, Jonathan D Buckley, Peter W Laird, Victor E Marquez, Jae U Jung

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High-coverage allele-resolved single-cell DNA methylation profiling reveals cell lineage, X-inactivation state, and replication dynamics by Nathan J. Spix, Walid Abi Habib, Zhouwei Zhang, Emily Eugster, Hsiao-yun Milliron, David Sokol, KwangHo Lee, Paula A. Nolte, Jamie L. Endicott, Kelly F. Krzyzanowski, Toshinori Hinoue, Jacob Morrison, Benjamin K. Johnson, Wanding Zhou, Hui Shen, Peter W. Laird

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Protocol for obtaining cancer type and subtype predictions using subSCOPE by Jasleen K. Grewal, A. Gordon Robertson, Kyle Ellrott, Christopher K. Wong, Jordan A. Lee, Christina Yau, Bahar Tercan, Mauro A.A. Castro, Christopher C. Benz, Jean C. Zenklusen, Andrew D. Cherniack, Peter W. Laird, Steven J.M. Jones, Theo A. Knijnenburg, Mauro A.A. Castro, Vinicius S. Chagas, Victor H. Apolonio, Verena Friedl, Joshua M. Stuart, Vladislav Uzunangelov, Christopher K. Wong, Jesper B. Andersen, Andrew D. Cherniack, Galen F. Gao, Gad Getz, Stephanie H. Hoyt, Whijae Roh, Lindsay Westlake, Christopher C. Benz, Jasleen K. Grewal, Steven J.M. Jones, A. Gordon Robertson, Samantha J. Caesar-Johnson, John A. Demchok, Ina Felau, Anab Kemal, Roy Tarnuzzer, Zhining Wang, Liming Yang, Jean C. Zenklusen, Rehan Akbani, Bradley M. Broom, Zhenlin Ju, Andre Schultz, Akinyemi I. Ojesina, Katherine A. Hoadley, Avantika Lal, Daniele Ramazzotti, Chen Wang, Alexander J. Lazar, Lewis R. Roberts, Taek-Kyun Kim, Ilya Shmulevich, Bahar Tercan, Paulos Charonyktakis, Vincenzo Lagani, Ioannis Tsamardinos, Esther Drill, Ronglai Shen, Martin L. Ferguson, Kami E. Chiotti, Kyle Ellrott, Brian J. Karlberg, Jordan A. Lee, Eve Lowenstein, Adam Struck, Paul T. Spellman, Christina Yau, Toshinori Hinoue, Peter W. Laird

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Pan-cancer immune and stromal deconvolution predicts clinical outcomes and mutation profiles by Bhavneet Bhinder, Verena Friedl, Sunantha Sethuraman, Davide Risso, Kami E. Chiotti, R. Jay Mashl, Kyle P. Ellrott, Jordan A. Lee, Christopher K. Wong, Kofi Gyan, Aditya Deshpande, Marcin Imielinski, Rohan Bareja, Josh Stuart, Myron Peto, Katherine A. Hoadley, Alexander J. Lazar, Andrew D. Cherniack, Jingchun Zhu, Shaolong Cao, Mark Rubin, Wenyi Wang, Oliver F. Bathe, Nicolas Robine, Li Ding, Peter W. Laird, Wanding Zhou, Hui Shen, Vésteinn Thorsson, Jen Jen Yeh, Matthew H. Bailey, Daniel Cui Zhou, Xianlu L. Peng, Mary Goldman, Yongsheng Li, Anil Korkut, Nidhi Sahni, D. Neil Hayes, Michael K. A. Mensah, Ina Felau, Anab Kemal, Samantha Caesar-Johnson, John A. Demchok, Liming Yang, Martin L. Ferguson, Roy Tarnuzzer, Zhining Wang, Jean C. Zenklusen, The Cancer Genome Atlas Analysis Network, Paul Spellman, Olivier Elemento

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