Chromothripsis from DNA damage in micronuclei von Zhang, Cheng-Zhong, Spektor, Alexander, Cornils, Hauke, Francis, Joshua M., Jackson, Emily K., Liu, Shiwei, Meyerson, Matthew, Pellman, David

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Identification of focally amplified lineage-specific super-enhancers in human epithelial cancers von Zhang, Xiaoyang, Choi, Peter S, Francis, Joshua M, Imielinski, Marcin, Watanabe, Hideo, Cherniack, Andrew D, Meyerson, Matthew

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Prospective Derivation of a Living Organoid Biobank of Colorectal Cancer Patients von van de Wetering, Marc, Francies, Hayley E., Francis, Joshua M., Bounova, Gergana, Iorio, Francesco, Pronk, Apollo, van Houdt, Winan, van Gorp, Joost, Taylor-Weiner, Amaro, Kester, Lennart, McLaren-Douglas, Anne, Blokker, Joyce, Jaksani, Sridevi, Bartfeld, Sina, Volckman, Richard, van Sluis, Peter, Li, Vivian S.W., Seepo, Sara, Sekhar Pedamallu, Chandra, Cibulskis, Kristian, Carter, Scott L., McKenna, Aaron, Lawrence, Michael S., Lichtenstein, Lee, Stewart, Chip, Koster, Jan, Versteeg, Rogier, van Oudenaarden, Alexander, Saez-Rodriguez, Julio, Vries, Robert G.J., Getz, Gad, Wessels, Lodewyk, Stratton, Michael R., McDermott, Ultan, Meyerson, Matthew, Garnett, Mathew J., Clevers, Hans

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Single-cell RNA-seq supports a developmental hierarchy in human oligodendroglioma von Tirosh, Itay, Venteicher, Andrew S., Hebert, Christine, Escalante, Leah E., Patel, Anoop P., Yizhak, Keren, Fisher, Jonathan M., Rodman, Christopher, Mount, Christopher, Filbin, Mariella G., Neftel, Cyril, Desai, Niyati, Nyman, Jackson, Izar, Benjamin, Luo, Christina C., Francis, Joshua M., Patel, Aanand A., Onozato, Maristela L., Riggi, Nicolo, Livak, Kenneth J., Gennert, Dave, Satija, Rahul, Nahed, Brian V., Curry, William T., Martuza, Robert L., Mylvaganam, Ravindra, Iafrate, A. John, Frosch, Matthew P., Golub, Todd R., Rivera, Miguel N., Getz, Gad, Rozenblatt-Rosen, Orit, Cahill, Daniel P., Monje, Michelle, Bernstein, Bradley E., Louis, David N., Regev, Aviv, Suvà, Mario L.

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Small-molecule targeting of brachyury transcription factor addiction in chordoma von Sharifnia, Tanaz, Wawer, Mathias J., Chen, Ting, Huang, Qing-Yuan, Weir, Barbara A., Sizemore, Ann, Lawlor, Matthew A., Goodale, Amy, Cowley, Glenn S., Vazquez, Francisca, Ott, Christopher J., Francis, Joshua M., Sassi, Slim, Cogswell, Patricia, Sheppard, Hadley E., Zhang, Tinghu, Gray, Nathanael S., Clarke, Paul A., Blagg, Julian, Workman, Paul, Sommer, Josh, Hornicek, Francis, Root, David E., Hahn, William C., Bradner, James E., Wong, Kwok K., Clemons, Paul A., Lin, Charles Y., Kotz, Joanne D., Schreiber, Stuart L.

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Somatic Superenhancer Duplications and Hotspot Mutations Lead to Oncogenic Activation of the KLF5 Transcription Factor von Zhang, Xiaoyang, Choi, Peter S, Francis, Joshua M, Gao, Galen F, Campbell, Joshua D, Ramachandran, Aruna, Mitsuishi, Yoichiro, Ha, Gavin, Shih, Juliann, Vazquez, Francisca, Tsherniak, Aviad, Taylor, Alison M, Zhou, Jin, Wu, Zhong, Berger, Ashton C, Giannakis, Marios, Hahn, William C, Cherniack, Andrew D, Meyerson, Matthew

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EGFR variant heterogeneity in glioblastoma resolved through single-nucleus sequencing von Francis, Joshua M, Zhang, Cheng-Zhong, Maire, Cecile L, Jung, Joonil, Manzo, Veronica E, Adalsteinsson, Viktor A, Homer, Heather, Haidar, Sam, Blumenstiel, Brendan, Pedamallu, Chandra Sekhar, Ligon, Azra H, Love, J Christopher, Meyerson, Matthew, Ligon, Keith L

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Multi-Omics Analysis Identifies MGA as a Negative Regulator of the MYC Pathway in Lung Adenocarcinoma von Llabata, Paula, Mitsuishi, Yoichiro, Choi, Peter S., Cai, Diana, Francis, Joshua M., Torres-Diz, Manuel, Udeshi, Namrata D., Golomb, Lior, Wu, Zhong, Zhou, Jin, Svinkina, Tanya, Aguilera-Jimenez, Estrella, Liu, Yanli, Carr, Steven A., Sanchez-Cespedes, Montse, Meyerson, Matthew, Zhang, Xiaoyang

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Dynamic epigenetic regulation by menin during pancreatic islet tumor formation von Lin, Wenchu, Watanabe, Hideo, Peng, Shouyong, Francis, Joshua M, Kaplan, Nathan, Pedamallu, Chandra Sekhar, Ramachandran, Aruna, Agoston, Agoston, Bass, Adam J, Meyerson, Matthew

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Utilizing feline oral squamous cell carcinoma patients to develop NQO1-targeted therapy von Lundberg, Alycen P., Boudreau, Matthew W., Selting, Kim A., Chatkewitz, Lindsay E., Samuelson, Jonathan, Francis, Joshua M., Parkinson, Elizabeth I., Barger, Anne M., Hergenrother, Paul J., Fan, Timothy M.

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tumor suppressor Cdc73 functionally associates with CPSF and CstF 3' mRNA processing factors von Rozenblatt-Rosen, Orit, Nagaike, Takashi, Francis, Joshua M, Kaneko, Syuzo, Glatt, Karen A, Hughes, Christina M, LaFramboise, Thomas, Manley, James L, Meyerson, Matthew

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Integrated cistromic and expression analysis of amplified NKX2-1 in lung adenocarcinoma identifies LMO3 as a functional transcriptional target von Watanabe, Hideo, Francis, Joshua M, Woo, Michele S, Etemad, Banafsheh, Lin, Wenchu, Fries, Daniel F, Peng, Shouyong, Snyder, Eric L, Tata, Purushothama Rao, Izzo, Francesca, Schinzel, Anna C, Cho, Jeonghee, Hammerman, Peter S, Verhaak, Roel G, Hahn, William C, Rajagopal, Jayaraj, Jacks, Tyler, Meyerson, Matthew

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ARID1A and TERT promoter mutations in dedifferentiated meningioma von Abedalthagafi, Malak S, Bi, Wenya Linda, Merrill, Parker H, Gibson, William J, Rose, Matthew F, Du, Ziming, Francis, Joshua M, Du, Rose, Dunn, Ian F, Ligon, Azra H, Beroukhim, Rameen, Santagata, Sandro

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Whole-exome sequencing of circulating tumor cells provides a window into metastatic prostate cancer von Lohr, Jens G, Adalsteinsson, Viktor A, Cibulskis, Kristian, Choudhury, Atish D, Rosenberg, Mara, Cruz-Gordillo, Peter, Francis, Joshua M, Zhang, Cheng-Zhong, Shalek, Alex K, Satija, Rahul, Trombetta, John J, Lu, Diana, Tallapragada, Naren, Tahirova, Narmin, Kim, Sora, Blumenstiel, Brendan, Sougnez, Carrie, Lowe, Alarice, Wong, Bang, Auclair, Daniel, Van Allen, Eliezer M, Nakabayashi, Mari, Lis, Rosina T, Lee, Gwo-Shu M, Li, Tiantian, Chabot, Matthew S, Ly, Amy, Taplin, Mary-Ellen, Clancy, Thomas E, Loda, Massimo, Regev, Aviv, Meyerson, Matthew, Hahn, William C, Kantoff, Philip W, Golub, Todd R, Getz, Gad, Boehm, Jesse S, Love, J Christopher

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Scalable whole-exome sequencing of cell-free DNA reveals high concordance with metastatic tumors von Adalsteinsson, Viktor A., Ha, Gavin, Freeman, Samuel S., Choudhury, Atish D., Stover, Daniel G., Parsons, Heather A., Gydush, Gregory, Reed, Sarah C., Rotem, Denisse, Rhoades, Justin, Loginov, Denis, Livitz, Dimitri, Rosebrock, Daniel, Leshchiner, Ignaty, Kim, Jaegil, Stewart, Chip, Rosenberg, Mara, Francis, Joshua M., Zhang, Cheng-Zhong, Cohen, Ofir, Oh, Coyin, Ding, Huiming, Polak, Paz, Lloyd, Max, Mahmud, Sairah, Helvie, Karla, Merrill, Margaret S., Santiago, Rebecca A., O’Connor, Edward P., Jeong, Seong H., Leeson, Rachel, Barry, Rachel M., Kramkowski, Joseph F., Zhang, Zhenwei, Polacek, Laura, Lohr, Jens G., Schleicher, Molly, Lipscomb, Emily, Saltzman, Andrea, Oliver, Nelly M., Marini, Lori, Waks, Adrienne G., Harshman, Lauren C., Tolaney, Sara M., Van Allen, Eliezer M., Winer, Eric P., Lin, Nancy U., Nakabayashi, Mari, Taplin, Mary-Ellen, Johannessen, Cory M., Garraway, Levi A., Golub, Todd R., Boehm, Jesse S., Wagle, Nikhil, Getz, Gad, Love, J. Christopher, Meyerson, Matthew

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Chromatin Looping Shapes KLF5-Dependent Transcriptional Programs in Human Epithelial Cancers von Liu, Yanli, Guo, Bingqian, Aguilera-Jimenez, Estrella, Chu, Vivian S., Zhou, Jin, Wu, Zhong, Francis, Joshua M., Yang, Xiaojun, Choi, Peter S., Bailey, Swneke D., Zhang, Xiaoyang

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Constitutive asymmetric dimerization drives oncogenic activation of epidermal growth factor receptor carboxyl-terminal deletion mutants von Park, Angela K J, Francis, Joshua M, Park, Woong-Yang, Park, Joon-Oh, Cho, Jeonghee

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SOX2 and p63 colocalize at genetic loci in squamous cell carcinomas von Watanabe, Hideo, Ma, Qiuping, Peng, Shouyong, Adelmant, Guillaume, Swain, Danielle, Song, Wenyu, Fox, Cameron, Francis, Joshua M, Pedamallu, Chandra Sekhar, DeLuca, David S, Brooks, Angela N, Wang, Su, Que, Jianwen, Rustgi, Anil K, Wong, Kwok-kin, Ligon, Keith L, Liu, X Shirley, Marto, Jarrod A, Meyerson, Matthew, Bass, Adam J

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Integrated single-cell genetic and transcriptional analysis suggests novel drivers of chronic lymphocytic leukemia von Wang, Lili, Fan, Jean, Francis, Joshua M, Georghiou, George, Hergert, Sarah, Li, Shuqiang, Gambe, Rutendo, Zhou, Chensheng W, Yang, Chunxiao, Xiao, Sheng, Cin, Paola Dal, Bowden, Michaela, Kotliar, Dylan, Shukla, Sachet A, Brown, Jennifer R, Neuberg, Donna, Alessi, Dario R, Zhang, Cheng-Zhong, Kharchenko, Peter V, Livak, Kenneth J, Wu, Catherine J

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Cetuximab Response of Lung Cancer―Derived EGF Receptor Mutants Is Associated with Asymmetric Dimerization von JEONGHEE CHO, LIANG CHEN, GREULICH, Heidi, JOHNSON, Bruce E, ECK, Michael J, JÄNNE, Pasi A, WONG, Kwok-Kin, MEYERSON, Matthew, SANGJI, Naveen, OKABE, Takafumi, YONESAKA, Kimio, FRANCIS, Joshua M, FLAVIN, Richard J, JOHNSON, William, JIHYUN KWON, SOYOUNG YU

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