Identification of a pan-cancer oncogenic microRNA superfamily anchored by a central core seed motif

Por Hamilton, Mark P., Rajapakshe, Kimal, Hartig, Sean M., Reva, Boris, McLellan, Michael D., Kandoth, Cyriac, Ding, Li, Zack, Travis I., Gunaratne, Preethi H., Wheeler, David A., Coarfa, Cristian, McGuire, Sean E.
Publicado em 2013

ATARiS: Computational quantification of gene suppression phenotypes from multisample RNAi screens

Por Shao, Diane D., Tsherniak, Aviad, Gopal, Shuba, Weir, Barbara A., Tamayo, Pablo, Stransky, Nicolas, Schumacher, Steven E., Zack, Travis I., Beroukhim, Rameen, Garraway, Levi A., Margolin, Adam A., Root, David E., Hahn, William C., Mesirov, Jill P.
Publicado em 2013

Pan-cancer patterns of somatic copy-number alteration

Por Zack, Travis I., Schumacher, Steven E., Carter, Scott L., Cherniack, Andrew D., Saksena, Gordon, Tabak, Barbara, Lawrence, Michael S., Zhang, Cheng-Zhong, Wala, Jeremiah, Mermel, Craig H., Sougnez, Carrie, Gabriel, Stacey B., Hernandez, Bryan, Shen, Hui, Laird, Peter W., Getz, Gad, Meyerson, Matthew, Beroukhim, Rameen
Publicado em 2013

Cancer vulnerabilities unveiled by genomic loss

Por Nijhawan, Deepak, Zack, Travis I., Ren, Yin, Strickland, Matthew R., Lamothe, Rebecca, Schumacher, Steven E., Tsherniak, Aviad, Besche, Henrike C., Rosenbluh, Joseph, Shehata, Shyemaa, Cowley, Glenn S., Weir, Barbara A., Goldberg, Alfred L., Mesirov, Jill P., Root, David E., Bhatia, Sangeeta N., Beroukhim, Rameen, Hahn, William C.
Publicado em 2012

β-catenin driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis

Por Rosenbluh, Joseph, Nijhawan, Deepak, Cox, Andrew G., Li, Xingnan, Neal, James T., Schafer, Eric J., Zack, Travis I., Wang, Xiaoxing, Tsherniak, Aviad, Schinzel, Anna C., Shao, Diane D., Schumacher, Steven E., Weir, Barbara A., Vazquez, Francisca, Cowley, Glenn S., Root, David E., Mesirov, Jill P., Beroukhim, Rameen, Kuo, Calvin J., Goessling, Wolfram, Hahn, William C.
Publicado em 2012

Integrated Genomic Analysis of the 8q24 Amplification in Endometrial Cancers Identifies ATAD2 as Essential to MYC-Dependent Cancers

Por Raeder, Maria B., Birkeland, Even, Trovik, Jone, Krakstad, Camilla, Shehata, Shyemaa, Schumacher, Steven, Zack, Travis I., Krohn, Antje, Werner, Henrica MJ., Moody, Susan E., Wik, Elisabeth, Stefansson, Ingunn M., Holst, Frederik, Oyan, Anne M., Tamayo, Pablo, Mesirov, Jill P., Kalland, Karl H., Akslen, Lars A., Simon, Ronald, Beroukhim, Rameen, Salvesen, Helga B.
Publicado em 2013

Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage

Por Hill, Sarah J., Rolland, Thomas, Adelmant, Guillaume, Xia, Xianfang, Owen, Matthew S., Dricot, Amélie, Zack, Travis I., Sahni, Nidhi, Jacob, Yves, Hao, Tong, McKinney, Kristine M., Clark, Allison P., Reyon, Deepak, Tsai, Shengdar Q., Joung, J. Keith, Beroukhim, Rameen, Marto, Jarrod A., Vidal, Marc, Gaudet, Suzanne, Hill, David E., Livingston, David M.
Publicado em 2014

Genomic heterogeneity and exceptional response to dual pathway inhibition in anaplastic thyroid cancer

Por Gibson, William J., Ruan, Daniel T., Paulson, Vera A., Barletta, Justine A., Hanna, Glenn J., Kraft, Stefan, Calles, Antonio, Nehs, Matthew A., Moore, Francis D., Taylor-Weiner, Amaro, Wala, Jeremiah, Zack, Travis I., Lee, Thomas C., Fennessy, Fiona M., Alexander, Erik K., Thomas, Tom, Janne, Pasi A., Garraway, Levi A., Carter, Scott L., Beroukhim, Rameen, Lorch, Jochen H., Van Allen, Eliezer M.
Publicado no Clin Cancer Res (2016)

The genomic landscape and evolution of endometrial carcinoma progression and abdominopelvic metastasis

Por Gibson, William J., Hoivik, Erling A., Halle, Mari K., Taylor-Weiner, Amaro, Cherniack, Andrew D., Berg, Anna, Holst, Frederik, Zack, Travis I., Werner, Henrica M. J., Staby, Kjersti M., Rosenberg, Mara, Stefansson, Ingunn M., Kusonmano, Kanthida, Chevalier, Aaron, Mauland, Karen K., Trovik, Jone, Krakstad, Camilla, Giannakis, Marios, Hodis, Eran, Woie, Kathrine, Bjorge, Line, Vintermyr, Olav K., Wala, Jeremiah A., Lawrence, Michael S., Getz, Gad, Carter, Scott L., Beroukhim, Rameen, Salvesen, Helga B.
Publicado no Nat Genet (2016)

Copy-number and gene dependency analysis reveals partial copy loss of wild-type SF3B1 as a novel cancer vulnerability

Por Paolella, Brenton R, Gibson, William J, Urbanski, Laura M, Alberta, John A, Zack, Travis I, Bandopadhayay, Pratiti, Nichols, Caitlin A, Agarwalla, Pankaj K, Brown, Meredith S, Lamothe, Rebecca, Yu, Yong, Choi, Peter S, Obeng, Esther A, Heckl, Dirk, Wei, Guo, Wang, Belinda, Tsherniak, Aviad, Vazquez, Francisca, Weir, Barbara A, Root, David E, Cowley, Glenn S, Buhrlage, Sara J, Stiles, Charles D, Ebert, Benjamin L, Hahn, William C, Reed, Robin, Beroukhim, Rameen
Publicado no eLife (2017)

Characterizing genomic alterations in cancer by complementary functional associations

Por Kim, J. W., Botvinnik, O. B., Abudayyeh, O., Birger, C., Rosenbluh, J., Shrestha, Y., Abazeed, M. E., Hammerman, P. S., DiCara, D., Konieczkowski, D. J., Johannessen, C. M., Liberzon, A., Alizad-Rahvar, A. R., Alexe, G., Aguirre, A., Ghandi, M., Greulich, H., Vazquez, F., Weir, B. A., Van Allen, E. M., Tsherniak, A., Shao, D. D., Zack, T. I., Noble, M., Getz, G., Beroukhim, R., Garraway, L. A., Ardakani, M., Romualdi, C., Sales, G., Barbie, D. A., Boehm, J. S., Hahn, W. C., Mesirov, J. P., Tamayo, P.
Publicado no Nat Biotechnol (2016)

Integrated Genomic Characterization of Papillary Thyroid Carcinoma

Por Agrawal, Nishant, Akbani, Rehan, Aksoy, B. Arman, Ally, Adrian, Arachchi, Harindra, Asa, Sylvia L., Auman, J. Todd, Balasundaram, Miruna, Balu, Saianand, Baylin, Stephen B., Behera, Madhusmita, Bernard, Brady, Beroukhim, Rameen, Bishop, Justin A., Black, Aaron D., Bodenheimer, Tom, Boice, Lori, Bootwalla, Moiz S., Bowen, Jay, Bowlby, Reanne, Bristow, Christopher A., Brookens, Robin, Brooks, Denise, Bryant, Robert, Buda, Elizabeth, Butterfield, Yaron S.N., Carling, Tobias, Carlsen, Rebecca, Carter, Scott L., Carty, Sally E., Chan, Timothy A., Chen, Amy Y., Cherniack, Andrew D., Cheung, Dorothy, Chin, Lynda, Cho, Juok, Chu, Andy, Chuah, Eric, Cibulskis, Kristian, Ciriello, Giovanni, Clarke, Amanda, Clayman, Gary L., Cope, Leslie, Copland, John, Covington, Kyle, Danilova, Ludmila, Davidsen, Tanja, Demchok, John A., DiCara, Daniel, Dhalla, Noreen, Dhir, Rajiv, Dookran, Sheliann S., Dresdner, Gideon, Eldridge, Jonathan, Eley, Greg, El-Naggar, Adel K., Eng, Stephanie, Fagin, James A., Fennell, Timothy, Ferris, Robert L., Fisher, Sheila, Frazer, Scott, Frick, Jessica, Gabriel, Stacey B., Ganly, Ian, Gao, Jianjiong, Garraway, Levi A., Gastier-Foster, Julie M., Getz, Gad, Gehlenborg, Nils, Ghossein, Ronald, Gibbs, Richard A., Giordano, Thomas J., Gomez-Hernandez, Karen, Grimsby, Jonna, Gross, Benjamin, Guin, Ranabir, Hadjipanayis, Angela, Harper, Hollie A., Hayes, D. Neil, Heiman, David I., Herman, James G., Hoadley, Katherine A., Hofree, Matan, Holt, Robert A., Hoyle, Alan P., Huang, Franklin W., Huang, Mei, Hutter, Carolyn M., Ideker, Trey, Iype, Lisa, Jacobsen, Anders, Jefferys, Stuart R., Jones, Corbin D., Jones, Steven J.M., Kasaian, Katayoon, Kebebew, Electron, Khuri, Fadlo R., Kim, Jaegil, Kramer, Roger, Kreisberg, Richard, Kucherlapati, Raju, Kwiatkowski, David J., Ladanyi, Marc, Lai, Phillip H., Laird, Peter W., Lander, Eric, Lawrence, Michael S., Lee, Darlene, Lee, Eunjung, Lee, Semin, Lee, William, Leraas, Kristen M., Lichtenberg, Tara M., Lichtenstein, Lee, Lin, Pei, Ling, Shiyun, Liu, Jinze, Liu, Wenbin, Liu, Yingchun, LiVolsi, Virginia A., Lu, Yiling, Ma, Yussanne, Mahadeshwar, Harshad S., Marra, Marco A., Mayo, Michael, McFadden, David G., Meng, Shaowu, Meyerson, Matthew, Mieczkowski, Piotr A., Miller, Michael, Mills, Gordon, Moore, Richard A., Mose, Lisle E., Mungall, Andrew J., Murray, Bradley A., Nikiforov, Yuri E., Noble, Michael S., Ojesina, Akinyemi I., Owonikoko, Taofeek K., Ozenberger, Bradley A., Pantazi, Angeliki, Parfenov, Michael, Park, Peter J., Parker, Joel S., Paull, Evan O., Pedamallu, Chandra Sekhar, Perou, Charles M., Prins, Jan F., Protopopov, Alexei, Ramalingam, Suresh S., Ramirez, Nilsa C., Ramirez, Ricardo, Raphael, Benjamin J., Rathmell, W. Kimryn, Ren, Xiaojia, Reynolds, Sheila M., Rheinbay, Esther, Ringel, Matthew D., Rivera, Michael, Roach, Jeffrey, Robertson, A. Gordon, Rosenberg, Mara W., Rosenthall, Matthew, Sadeghi, Sara, Saksena, Gordon, Sander, Chris, Santoso, Netty, Schein, Jacqueline E., Schultz, Nikolaus, Schumacher, Steven E., Seethala, Raja R., Seidman, Jonathan, Senbabaoglu, Yasin, Seth, Sahil, Sharpe, Samantha, Mills Shaw, Kenna R., Shen, John P., Shen, Ronglai, Sherman, Steven, Sheth, Margi, Shi, Yan, Shmulevich, Ilya, Sica, Gabriel L., Simons, Janae V., Sipahimalani, Payal, Smallridge, Robert C., Sofia, Heidi J., Soloway, Matthew G., Song, Xingzhi, Sougnez, Carrie, Stewart, Chip, Stojanov, Petar, Stuart, Joshua M., Tabak, Barbara, Tam, Angela, Tan, Donghui, Tang, Jiabin, Tarnuzzer, Roy, Taylor, Barry S., Thiessen, Nina, Thorne, Leigh, Thorsson, Vésteinn, Tuttle, R. Michael, Umbricht, Christopher B., Van Den Berg, David J., Vandin, Fabio, Veluvolu, Umadevi, Verhaak, Roel G.W., Vinco, Michelle, Voet, Doug, Walter, Vonn, Wang, Zhining, Waring, Scot, Weinberger, Paul M., Weinstein, John N., Weisenberger, Daniel J., Wheeler, David, Wilkerson, Matthew D., Wilson, Jocelyn, Williams, Michelle, Winer, Daniel A., Wise, Lisa, Wu, Junyuan, Xi, Liu, Xu, Andrew W., Yang, Liming, Yang, Lixing, Zack, Travis I., Zeiger, Martha A., Zeng, Dong, Zenklusen, Jean Claude, Zhao, Ni, Zhang, Hailei, Zhang, Jianhua, Zhang, Jiashan (Julia), Zhang, Wei, Zmuda, Erik, Zou., Lihua
Publicado no Cell (2014)

Characterization of HPV and host genome interactions in primary head and neck cancers

Por Parfenov, Michael, Pedamallu, Chandra Sekhar, Gehlenborg, Nils, Freeman, Samuel S., Danilova, Ludmila, Bristow, Christopher A., Lee, Semin, Hadjipanayis, Angela G., Ivanova, Elena V., Wilkerson, Matthew D., Protopopov, Alexei, Yang, Lixing, Seth, Sahil, Song, Xingzhi, Tang, Jiabin, Ren, Xiaojia, Zhang, Jianhua, Pantazi, Angeliki, Santoso, Netty, Xu, Andrew W., Mahadeshwar, Harshad, Wheeler, David A., Haddad, Robert I., Jung, Joonil, Ojesina, Akinyemi I., Issaeva, Natalia, Yarbrough, Wendell G., Hayes, D. Neil, Grandis, Jennifer R., El-Naggar, Adel K., Meyerson, Matthew, Park, Peter J., Chin, Lynda, Seidman, J. G., Hammerman, Peter S., Kucherlapati, Raju, Ally, Adrian, Balasundaram, Miruna, Birol, Inanc, Bowlby, Reanne, Butterfield, Yaron S.N., Carlsen, Rebecca, Cheng, Dean, Chu, Andy, Dhalla, Noreen, Guin, Ranabir, Holt, Robert A., Jones, Steven J.M., Lee, Darlene, Li, Haiyan I., Marra, Marco A., Mayo, Michael, Moore, Richard A., Mungall, Andrew J., Robertson, A. Gordon, Schein, Jacqueline E., Sipahimalani, Payal, Tam, Angela, Thiessen, Nina, Wong, Tina, Protopopov, Alexei, Santoso, Netty, Lee, Semin, Parfenov, Michael, Zhang, Jianhua, Mahadeshwar, Harshad S., Tang, Jiabin, Ren, Xiaojia, Seth, Sahil, Haseley, Psalm, Zeng, Dong, Yang, Lixing, Xu, Andrew W., Song, Xingzhi, Pantazi, Angeliki, Bristow, Christopher, Hadjipanayis, Angela, Seidman, Jonathan, Chin, Lynda, Park, Peter J., Kucherlapati, Raju, Akbani, Rehan, Casasent, Tod, Liu, Wenbin, Lu, Yiling, Mills, Gordon, Motter, Thomas, Weinstein, John, Diao, Lixia, Wang, Jing, Fan, You Hong, Liu, Jinze, Wang, Kai, Auman, J. Todd, Balu, Saianand, Bodenheimer, Tom, Buda, Elizabeth, Hayes, D. Neil, Hoadley, Katherine A., Hoyle, Alan P., Jefferys, Stuart R., Jones, Corbin D., Kimes, Patrick K., Marron, J.S., Meng, Shaowu, Mieczkowski, Piotr A., Mose, Lisle E., Parker, Joel S., Perou, Charles M., Prins, Jan F., Roach, Jeffrey, Shi, Yan, Simons, Janae V., Singh, Darshan, Soloway, Mathew G., Tan, Donghui, Veluvolu, Umadevi, Walter, Vonn, Waring, Scot, Wilkerson, Matthew D., Wu, Junyuan, Zhao, Ni, Cherniack, Andrew D., Hammerman, Peter S., Tward, Aaron D., Pedamallu, Chandra Sekhar, Saksena, Gordon, Jung, Joonil, Ojesina, Akinyemi I., Carter, Scott L., Zack, Travis I., Schumacher, Steven E., Beroukhim, Rameen, Freeman, Samuel S., Meyerson, Matthew, Cho, Juok, Chin, Lynda, Getz, Gad, Noble, Michael S., DiCara, Daniel, Zhang, Hailei, Heiman, David I., Gehlenborg, Nils, Voet, Doug, Lin, Pei, Frazer, Scott, Stojanov, Petar, Liu, Yingchun, Zou, Lihua, Kim, Jaegil, Lawrence, Michael S., Sougnez, Carrie, Lichtenstein, Lee, Cibulskis, Kristian, Lander, Eric, Gabriel, Stacey B., Muzny, Donna, Doddapaneni, HarshaVardhan, Kovar, Christie, Reid, Jeff, Morton, Donna, Han, Yi, Hale, Walker, Chao, Hsu, Chang, Kyle, Drummond, Jennifer A., Gibbs, Richard A., Kakkar, Nipun, Wheeler, David, Xi, Liu, Ciriello, Giovanni, Ladanyi, Marc, Lee, William, Ramirez, Ricardo, Sander, Chris, Shen, Ronglai, Sinha, Rileen, Weinhold, Nils, Taylor, Barry S., Aksoy, B. Arman, Dresdner, Gideon, Gao, Jianjiong, Gross, Benjamin, Jacobsen, Anders, Reva, Boris, Schultz, Nikolaus, Sumer, S. Onur, Sun, Yichao, Chan, Timothy, Morris, Luc, Stuart, Joshua, Benz, Stephen, Ng, Sam, Benz, Christopher, Yau, Christina, Baylin, Stephen B., Cope, Leslie, Danilova, Ludmila, Herman, James G., Bootwalla, Moiz, Maglinte, Dennis T., Laird, Peter W., Triche, Timothy, Weisenberger, Daniel J., Van Den Berg, David J., Agrawal, Nishant, Bishop, Justin, Boutros, Paul C., Bruce, Jeff P, Byers, Lauren Averett, Califano, Joseph, Carey, Thomas E., Chen, Zhong, Cheng, Hui, Chiosea, Simion I., Cohen, Ezra, Diergaarde, Brenda, Egloff, Ann Marie, El-Naggar, Adel K., Ferris, Robert L., Frederick, Mitchell J., Grandis, Jennifer R., Guo, Yan, Haddad, Robert I., Hammerman, Peter S., Harris, Thomas, Hayes, D. Neil, Hui, Angela BY, Lee, J. Jack, Lippman, Scott M., Liu, Fei-Fei, McHugh, Jonathan B., Myers, Jeff, Ng, Patrick Kwok Shing, Perez-Ordonez, Bayardo, Pickering, Curtis R., Prystowsky, Michael, Romkes, Marjorie, Saleh, Anthony D., Sartor, Maureen A., Seethala, Raja, Seiwert, Tanguy Y., Si, Han, Tward, Aaron D., Van Waes, Carter, Waggott, Daryl M., Wiznerowicz, Maciej, Yarbrough, Wendell, Zhang, Jiexin, Zuo, Zhixiang, Burnett, Ken, Crain, Daniel, Gardner, Johanna, Lau, Kevin, Mallery, David, Morris, Scott, Paulauskis, Joseph, Penny, Robert, Shelton, Candance, Shelton, Troy, Sherman, Mark, Yena, Peggy, Black, Aaron D., Bowen, Jay, Frick, Jessica, Gastier-Foster, Julie M., Harper, Hollie A., Lichtenberg, Tara M., Ramirez, Nilsa C., Wise, Lisa, Zmuda, Erik, Baboud, Julien, Jensen, Mark A., Kahn, Ari B., Pihl, Todd D., Pot, David A., Srinivasan, Deepak, Walton, Jessica S., Wan, Yunhu, Burton, Robert, Davidsen, Tanja, Demchok, John A., Eley, Greg, Ferguson, Martin L., Shaw, Kenna R. Mills, Ozenberger, Bradley A., Sheth, Margi, Sofia, Heidi J., Tarnuzzer, Roy, Wang, Zhining, Yang, Liming, Zenklusen, Jean Claude, Saller, Charles, Tarvin, Katherine, Chen, Chu, Bollag, Roni, Weinberger, Paul, Golusiński, Wojciech, Golusiński, Paweł, Ibbs, Matthiew, Korski, Konstanty, Mackiewicz, Andrzej, Suchorska, Wiktoria, Szybiak, Bartosz, Wiznerowicz, Maciej, Burnett, Ken, Curley, Erin, Gardner, Johanna, Mallery, David, Penny, Robert, Shelton, Troy, Yena, Peggy, Beard, Christina, Mitchell, Colleen, Sandusky, George, Agrawal, Nishant, Ahn, Julie, Bishop, Justin, Califano, Joseph, Khan, Zubair, Bruce, Jeff P, Hui, Angela BY, Irish, Jonathan, Liu, Fei-Fei, Perez-Ordonez, Bayardo, Waldron, John, Boutros, Paul C., Waggott, Daryl M., Myers, Jeff, Lippman, Scott M., Egea, Sophie, Gomez-Fernandez, Carmen, Herbert, Lynn, Bradford, Carol R., Carey, Thomas E., Chepeha, Douglas B., Haddad, Andrea S., Jones, Tamara R., Komarck, Christine M., Malakh, Mayya, McHugh, Jonathan B., Moyer, Jeffrey S., Nguyen, Ariane, Peterson, Lisa A., Prince, Mark E., Rozek, Laura S., Sartor, Maureen A., Taylor, Evan G., Walline, Heather M., Wolf, Gregory T., Boice, Lori, Chera, Bhishamjit S., Funkhouser, William K., Gulley, Margaret L., Hackman, Trevor G., Hayes, D. Neil, Hayward, Michele C., Huang, Mei, Rathmell, W. Kimryn, Salazar, Ashley H., Shockley, William W., Shores, Carol G., Thorne, Leigh, Weissler, Mark C., Wrenn, Sylvia, Zanation, Adam M., Chiosea, Simion I., Diergaarde, Brenda, Egloff, Ann Marie, Ferris, Robert L., Romkes, Marjorie, Seethala, Raja, Brown, Brandee T., Guo, Yan, Pham, Michelle, Yarbrough, Wendell G.
Publicado em 2014