RADIA: RNA and DNA integrated analysis for somatic mutation detection von Radenbaugh, Amie J, Ma, Singer, Ewing, Adam, Stuart, Joshua M, Collisson, Eric A, Zhu, Jingchun, Haussler, David

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Single-cell analyses of transcriptional heterogeneity during drug tolerance transition in cancer cells by RNA sequencing von Lee, Mei-Chong Wendy, Lopez-Diaz, Fernando J, Khan, Shahid Yar, Tariq, Muhammad Akram, Dayn, Yelena, Vaske, Charles Joseph, Radenbaugh, Amie J, Kim, Hyunsung John, Emerson, Beverly M, Pourmand, Nader

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Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma von Hruban, Ralph H., Moffitt, Richard A., Gupta, Manaswi, Getz, Gad, Gabriel, Stacey B., Meyerson, Matthew, Laird, Peter W., Loher, Phillipe, Rigoutsos, Isidore, Telonis, Aristeidis G., Mezlini, Aziz M., Hoadley, Katherine A., Murray, Bradley A., Hess, Julian, Zhang, Hailei, Tiao, Grace, Schumacher, Steven E., Noble, Michael S., Gehlenborg, Nils, Lawrence, Michael S., Bowlby, Reanne, Birol, Inanc, Weinstein, John N., Spellman, Paul T., Liu, Yuexin, Paul, Drwiega, Smyrk, Thomas, Gerken, Mark, Lau, Kevin, Renkel, Jeremy, Wise, Lisa, Yena, Peggy, Zmuda, Erik, Shih, Juliann, Balasundaram, Miruna, Chu, Andy, Chuah, Eric, Dhalla, Noreen, Mungall, Andrew J., Thiessen, Nina, Brooks, Denise, Balu, Saianand, Jefferys, Stuart R., Jones, Corbin D., Mose, Lisle E., Shi, Yan, Simons, Janae V., Soloway, Matthew G., Tan, Donghui, Chaffee, Kari, Oberg, Ann, Wheeler, David A., Bartlett, John, Stephen, Yeager, Howard, Zaren, Breggia, Anne, Shroff, Rachna T., Liu, Jia, Lolla, Laxmi, Pihl, Todd, Roggin, Kevin, Becker, Karl-Friedrich, Boice, Lori, Pretti da Cunha Tirapelli, Daniela, Huelsenbeck-Dill, Lori, Jenkins, Roger, Kemp, Rafael, Lyadov, Vladimir, Maithel, Shishir, Manikhas, Georgy, Montgomery, Eric, Noushmehr, Houtan, Owonikoko, Taofeek, Rieger-Christ, Kimberly, Sica, Gabriel, Su, Tao, Sullivan, Travis, Tarvin, Katherine, Urbanski, Stefan, Curley, Erin, Gardner, Johanna, Shelton, Candace, Bathe, Oliver, Hibshoosh, Hanina, Radenbaugh, Amie, Berrios, Mario, Bootwalla, Moiz S., Maglinte, Dennis T., Triche, Timothy J., Weisenberger, Daniel J., Kucherlapati, Melanie, Meier, Sam, Tempero, Margaret, Bailey, Peter, Gill, Anthony, Kench, James, Demchok, John A., Ferguson, Martin L., Tarnuzzer, Roy, Wang, Zhining

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Comprehensive molecular profiling of lung adenocarcinoma

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The Integrated Genomic Landscape of Thymic Epithelial Tumors von Anur, Pavana, McLellan, Mike, Bowlby, Reanne, Hegde, Apurva M., Leiserson, Mark D.M., Sethi, Geetika, Ryan, Michael, Su, Xiaoping, Cherniack, Andrew D., Akbani, Rehan, Spellman, Paul, Weinstein, John N., Raphael, Ben, Zenklusen, Jean Claude, Ally, Adrian, Appelbaum, Elizabeth L., Balasundaram, Miruna, Behera, Madhusmita, Blandino, Giovanni, Bowen, Jay, Carlsen, Rebecca, Carvalho, Andre L., Chin, Lynda, Choe, Gina, Chudamani, Sudha, Cibulskis, Carrie, Cordes, Matthew G., Crain, Daniel, Curley, Erin, Defreitas, Timothy, Dienemann, Hendrik, Facciolo, Francesco, Ferguson, Martin L., Fulton, Robert S., Gabriel, Stacey B., Gardner, Johanna, Gehlenborg, Nils, Gerken, Mark, Getz, Gad, Heiman, David I., Holbrook, Andrea, Hoyle, Alan P., Jones, Corbin D., Jones, Steven J.M., Kasaian, Katayoon, Lai, Phillip H., Lawrence, Michael S., Lin, Pei, Lolla, Laxmi, Lu, Yiling, Ma, Yussanne, Mardis, Elaine R., Meister, Michael, Meng, Shaowu, Meyerson, Matthew, Mills, Gordon B., Moore, Richard A., Morris, Scott, Mose, Lisle E., Muley, Thomas, Naresh, Rashi, Newton, Yulia, Owonikoko, Taofeek, Paulaskis, Joseph, Perou, Charles M., Perrin, Corinne, Radenbaugh, Amie, Ramirez, Nilsa, Rieker, Ralf, Roach, Jeffrey, Sadeghi, Sara, Saksena, Gordon, Schein, Jacqueline E., Schumacher, Steven E., Shelton, Candace, Shi, Yan, Simons, Janae V., Sofia, Heidi J., Sun, Qiang, Tan, Donghui, Tarnuzzer, Roy, Van Den Berg, David J., Veluvolu, Umadevi, Walter, Vonn, Wang, Zhining, Warth, Arne, Weis, Cleo-Aron, Weisenberger, Daniel J., Wilkerson, Matthew D., Wu, Hsin-Ta, Wu, Ye, Zmuda, Erik, Hwang, David, Marino, Mirella, Gokmen-Polar, Yesim, Badve, Sunil, Rajan, Arun, Ströbel, Philipp, Tsao, Ming S., Loehrer, Patrick J.

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Integrated Molecular Characterization of Uterine Carcinosarcoma von Cherniack, Andrew D., Murray, Bradley A., Hu, Xin, Ling, Shiyun, Soslow, Robert A., Zuna, Rosemary E., Laird, Peter W., Kucherlapati, Raju, Mills, Gordon B., Akbani, Rehan, Auman, J. Todd, Balasundaram, Miruna, Balu, Saianand, Baylin, Stephen B., Bodenheimer, Tom, Bogomolniy, Faina, Brooks, Denise, Carlsen, Rebecca, Cherniack, Andrew D., Cho, Juok, Chuah, Eric, Chudamani, Sudha, David, Mutch, Ferguson, Martin L., Frick, Jessica, Gabriel, Stacey, Gehlenborg, Nils, Gerken, Mark, Getz, Gad, Gupta, Manaswi, Heiman, David I., Hess, Julian, Hoffmann, Robert, Holt, Robert A., Hu, Xin, Hutter, Carolyn M., Jefferys, Stuart R., Kanchi, Rupa S., Kandoth, Cyriac, Kerr, Sarah, Kim, Jaegil, Lai, Phillip H., Laird, Peter W., Lander, Eric, Lawrence, Michael S., Lee, Darlene, Leshchiner, Ignaty, Levine, Douglas A., Lichtenberg, Tara M., Ling, Shiyun, Liu, Jia, Liu, Wenbin, Lolla, Laxmi, Lu, Yiling, Ma, Yussanne, Maglinte, Dennis T., Marra, Marco A., Mayo, Michael, Meng, Shaowu, Meyerson, Matthew, Moore, Richard A., Mose, Lisle E., Mungall, Karen, Murray, Bradley A., Naresh, Rashi, Parker, Joel S., Perou, Charles M., Radenbaugh, Amie J., Ramirez, Nilsa C., Rathmell, W. Kimryn, Roach, Jeffrey, Robertson, A. Gordon, Sadeghi, Sara, Saksena, Gordon, Salvesen, Helga B., Sheth, Margi, Shi, Yan, Shih, Juliann, Skelly, Tara, Sofia, Heidi J., Soloway, Matthew G., Sun, Charlie, Tan, Donghui, Tarnuzzer, Roy, Thorne, Leigh B., Tseng, Jill, Veluvolu, Umadevi, Verhaak, Roel G.W., Voet, Doug, Wan, Yunhu, Wang, Chen, Weisenberger, Daniel J., Wilkerson, Matthew D., Winterhoff, Boris, Wong, Tina, Yang, Liming, Zhang, Hailei, Zhu, Jing-chun, Zuna, Rosemary E., Weinstein, John N.

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Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection von Ewing, Adam D, Houlahan, Kathleen E, Hu, Yin, Ellrott, Kyle, Caloian, Cristian, Yamaguchi, Takafumi N, Bare, J Christopher, P'ng, Christine, Waggott, Daryl, Sabelnykova, Veronica Y, Kellen, Michael R, Norman, Thea C, Haussler, David, Friend, Stephen H, Stolovitzky, Gustavo, Margolin, Adam A, Stuart, Joshua M, Boutros, Paul C

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Arabidopsis Information Resource (TAIR): gene structure and function annotation von Swarbreck, David, Wilks, Christopher, Lamesch, Philippe, Berardini, Tanya Z, Garcia-Hernandez, Margarita, Foerster, Hartmut, Li, Donghui, Meyer, Tom, Muller, Robert, Ploetz, Larry, Radenbaugh, Amie, Singh, Shanker, Swing, Vanessa, Tissier, Christophe, Zhang, Peifen, Huala, Eva

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Integrated Molecular Characterization of Testicular Germ Cell Tumors von Shen, Hui, Hollern, Daniel P., Wang, Linghua, Bowlby, Reanne, Tickoo, Satish K., Mungall, Andrew J., Hegde, Apurva M., Armenia, Joshua, Feldman, Darren R., Vidal, Daniel O., Lessel, Davor, Kulis, Tomislav, Kasaian, Katayoon, Liu, Minwei, Noble, Michael S., Zhang, Hailei, Zhou, Wanding, ZenKlusen, Jean C., Zhang, Jiashan, Getz, Gad, Meyerson, Matthew, Stuart, Joshua M., Wang, Linghua, Xi, Liu, Korchina, Viktoriya, Lewis, Lora, Hu, Jianhong, Doddapaneni, HarshaVardhan, Gibbs, Richard, Hollern, Daniel, Auman, J. Todd, Shi, Yan, Mieczkowski, Piotr A., Jones, Corbin D., Balu, Saianand, Hoyle, Alan P., Jefferys, Stuart R., Mose, Lisle E., Simons, Janae V., Shih, Juliann, Cherniack, Andrew D., Saksena, Gordon, Cibulskis, Carrie, Schumacher, Steven E., Beroukhim, Rameen, Gabriel, Stacey B., Bowlby, Reanne, Mungall, Andrew J., Brooks, Denise, Ally, Adrian, Balasundaram, Miruna, Carlsen, Rebecca, Chuah, Eric, Robertson, A. Gordon, Wong, Tina, Zhou, Wanding, Laird, Peter W., Van Den Berg, David J., Lai, Phillip H., Chakravarty, Debyani, Kundra, Ritika, Sander, Chris, Ladanyi, Marc, Thorsson, Vesteinn, Newton, Yulia, Getz, Gad, Kim, Jaegil, Lawrence, Michael S., Liu, Wenbin, Lu, Yiling, Pyle, Louise C., Looijenga, Leendert, Kulis, Tomislav, Lerner, Seth, Lessel, Davor, Vidal, Daniel O., Leraas, Kristen M., Lichtenberg, Tara M., Bowen, Jay, Helsel, Carmen, Chesla, David, Saller, Charles, Tarvin, Katherine, Lopes, Luiz Fernando, Scapulatempo-Neto, Cristovam, Martin, Sue Ellen, Aron, Manju, Djaladat, Hooman, Lennerz, Jochen K., Gamulin, Marija, Huang, Mei, Rathmell, W. Kimryn, Wan, Yunhu, Sun, Qiang, Naresh, Rashi, Demchok, John A., Yang, Liming, Wang, Zhining, Tarnuzzer, Roy, Nathanson, Katherine L.

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Abstract 1182: Exploring longitudinal intra-tumor heterogeneity in cancer using whole genome sequencing and RNA rescue von Parulkar, Rahul, Benz, Steve, Vaske, Charlie, Radenbaugh, Amie, Szeto, Christopher

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Abstract 2522: RNA rescue somatic mutations and RNA editing in esophageal cancer von Radenbaugh, Amie J., Sanborn, J Zachary, Newton, Yulia, Vaske, Charlie, Loon, Katherine Van, Collisson, Eric

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Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples von Bailey, Matthew H., Meyerson, William U., Dursi, Lewis Jonathan, Wang, Liang-Bo, Dong, Guanlan, Liang, Wen-Wei, Weerasinghe, Amila, Li, Shantao, Li, Yize, Kelso, Sean, Saksena, Gordon, Ellrott, Kyle, Wendl, Michael C., Wheeler, David A., Getz, Gad, Simpson, Jared T., Gerstein, Mark B., Ding, Li

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A Genomic Analysis of Esophageal Squamous Cell Carcinoma in Eastern Africa von Van Loon, Katherine, Mmbaga, Elia J, Mushi, Beatrice P, Selekwa, Msiba, Mwanga, Ally, Akoko, Larry O, Mwaiselage, Julius, Mosha, Innocent, Ng, Dianna L, Wu, Wei, Silverstein, Jordyn, Mulima, Gift, Kaimila, Bongani, Gopal, Satish, Snell, Jeff M, Benz, Stephen Charles, Vaske, Charles, Sanborn, Zack, Sedgewick, Andrew J, Radenbaugh, Amie, Newton, Yulia, Collisson, Eric A

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An international report on bacterial communities in esophageal squamous cell carcinoma von Nomburg, Jason, Bullman, Susan, Nasrollahzadeh, Dariush, Collisson, Eric A., Abedi‐Ardekani, Behnoush, Akoko, Larry O., Atkins, Joshua R., Buckle, Geoffrey C., Gopal, Satish, Hu, Nan, Kaimila, Bongani, Khoshnia, Masoud, Malekzadeh, Reza, Menya, Diana, Mmbaga, Blandina T., Moody, Sarah, Mulima, Gift, Mushi, Beatrice P., Mwaiselage, Julius, Mwanga, Ally, Newton, Yulia, Ng, Dianna L., Radenbaugh, Amie, Rwakatema, Deogratias S., Selekwa, Msiba, Schüz, Joachim, Taylor, Philip R., Vaske, Charles, Goldstein, Alisa, Stratton, Michael R., McCormack, Valerie, Brennan, Paul, DeCaprio, James A., Meyerson, Matthew, Mmbaga, Elia J., Van Loon, Katherine

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Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples von Bailey, Matthew H., Meyerson, William U., Dursi, Lewis Jonathan, Wang, Liang-Bo, Dong, Guanlan, Liang, Wen-Wei, Weerasinghe, Amila, Li, Shantao, Li, Yize, Kelso, Sean, Saksena, Gordon, Ellrott, Kyle, Wendl, Michael C., Wheeler, David A., Getz, Gad, Simpson, Jared T., Gerstein, Mark B., Ding, Li

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Single-cell analyses of transcriptional heterogeneity during drug tolerance transition in cancer cells by RNA sequencing von Lee, Mei-Chong Wendy, Lopez-Diaz, Fernando J., Khan, Shahid Yar, Tariq, Muhammad Akram, Dayn, Yelena, Vaske, Charles Joseph, Radenbaugh, Amie J., Kim, Hyunsung John, Emerson, Beverly M., Pourmand, Nader

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Abstract 59: Identification of RNA editing events in cancer using high-throughput sequencing data von Radenbaugh, Amie, Sanborn, John Z., Zerbino, Daniel, Wilks, Chris, Stuart, Joshua M., Haussler, David

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Machine Learning Approaches for Defect Detection in a Microwell-based Medical Device von Zhao, Xueying, Chen, Yan, Jiang, Yuefu, Radenbaugh, Amie, Moskwa, Jamie, Jensen, Devon

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RADIA: RNA and DNA Integrated Analysis for Somatic Mutation Detection: e111516 von Radenbaugh, Amie J, Ma, Singer, Ewing, Adam, Stuart, Joshua M, Collisson, Eric A, Zhu, Jingchun, Haussler, David

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Machine Learning Approaches for Defect Detection in a Microwell-based Medical Device von Zhao, Xueying, Chen, Yan, Jiang, Yuefu, Radenbaugh, Amie, Moskwa, Jamie, Jensen, Devon

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