Visualizing and interpreting cancer genomics data via the Xena platform von Goldman, Mary J., Craft, Brian, Hastie, Mim, Repečka, Kristupas, McDade, Fran, Kamath, Akhil, Banerjee, Ayan, Luo, Yunhai, Rogers, Dave, Brooks, Angela N., Zhu, Jingchun, Haussler, David

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Reviewers: intercept weaponization of genetics von Goldman, Mary J.

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The UCSC Cancer Genomics Browser: update 2015 von Goldman, Mary, Craft, Brian, Swatloski, Teresa, Cline, Melissa, Morozova, Olena, Diekhans, Mark, Haussler, David, Zhu, Jingchun

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Exploring TCGA Pan-Cancer Data at the UCSC Cancer Genomics Browser von Cline, Melissa S., Craft, Brian, Swatloski, Teresa, Goldman, Mary, Ma, Singer, Haussler, David, Zhu, Jingchun

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The UCSC Genome Browser database: extensions and updates 2013 von Meyer, Laurence R, Zweig, Ann S, Hinrichs, Angie S, Karolchik, Donna, Kuhn, Robert M, Wong, Matthew, Sloan, Cricket A, Rosenbloom, Kate R, Roe, Greg, Rhead, Brooke, Raney, Brian J, Pohl, Andy, Malladi, Venkat S, Li, Chin H, Lee, Brian T, Learned, Katrina, Kirkup, Vanessa, Hsu, Fan, Heitner, Steve, Harte, Rachel A, Haeussler, Maximilian, Guruvadoo, Luvina, Goldman, Mary, Giardine, Belinda M, Fujita, Pauline A, Dreszer, Timothy R, Diekhans, Mark, Cline, Melissa S, Clawson, Hiram, Barber, Galt P, Haussler, David, Kent, W James

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A user guide for the online exploration and visualization of PCAWG data von Goldman, Mary J., Zhang, Junjun, Fonseca, Nuno A., Cortés-Ciriano, Isidro, Xiang, Qian, Craft, Brian, Piñeiro-Yáñez, Elena, O’Connor, Brian D., Bazant, Wojciech, Barrera, Elisabet, Muñoz-Pomer, Alfonso, Petryszak, Robert, Füllgrabe, Anja, Al-Shahrour, Fatima, Keays, Maria, Haussler, David, Weinstein, John N., Huber, Wolfgang, Valencia, Alfonso, Park, Peter J., Papatheodorou, Irene, Zhu, Jingchun, Ferretti, Vincent, Vazquez, Miguel

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The UCSC Cancer Genomics Browser: update 2013 von Goldman, Mary, Craft, Brian, Swatloski, Teresa, Ellrott, Kyle, Cline, Melissa, Diekhans, Mark, Ma, Singer, Wilks, Chris, Stuart, Josh, Haussler, David, Zhu, Jingchun

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Best practices to evaluate the impact of biomedical research software—metric collection beyond citations von Afiaz, Awan, Ivanov, Andrey A, Chamberlin, John, Hanauer, David, Savonen, Candace L, Goldman, Mary J, Morgan, Martin, Reich, Michael, Getka, Alexander, Holmes, Aaron, Pati, Sarthak, Knight, Dan, Boutros, Paul C, Bakas, Spyridon, Caporaso, J Gregory, Del Fiol, Guilherme, Hochheiser, Harry, Haas, Brian, Schloss, Patrick D, Eddy, James A, Albrecht, Jake, Fedorov, Andrey, Waldron, Levi, Hoffman, Ava M, Bradshaw, Richard L, Leek, Jeffrey T, Wright, Carrie

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BRCA Challenge: BRCA Exchange as a global resource for variants in BRCA1 and BRCA2 von Cline, Melissa S, Liao, Rachel G, Parsons, Michael T, Paten, Benedict, Alquaddoomi, Faisal, Antoniou, Antonis, Baxter, Samantha, Brody, Larry, Cook-Deegan, Robert, Coffin, Amy, Couch, Fergus J, Craft, Brian, Currie, Robert, Dlott, Chloe C, Dolman, Lena, den Dunnen, Johan T, Dyke, Stephanie O M, Domchek, Susan M, Easton, Douglas, Fischmann, Zachary, Foulkes, William D, Garber, Judy, Goldgar, David, Goldman, Mary J, Goodhand, Peter, Harrison, Steven, Haussler, David, Kato, Kazuto, Knoppers, Bartha, Markello, Charles, Nussbaum, Robert, Offit, Kenneth, Plon, Sharon E, Rashbass, Jem, Rehm, Heidi L, Robson, Mark, Rubinstein, Wendy S, Stoppa-Lyonnet, Dominique, Tavtigian, Sean, Thorogood, Adrian, Zhang, Can, Zimmermann, Marc, Burn, John, Chanock, Stephen, Rätsch, Gunnar, Spurdle, Amanda B

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Whole-genome characterization of lung adenocarcinomas lacking alterations in the RTK/RAS/RAF pathway von Carrot-Zhang, Jian, Yao, Xiaotong, Devarakonda, Siddhartha, Deshpande, Aditya, Damrauer, Jeffrey S., Silva, Tiago Chedraoui, Wong, Christopher K., Choi, Hyo Young, Felau, Ina, Robertson, A. Gordon, Castro, Mauro A.A., Bao, Lisui, Rheinbay, Esther, Liu, Eric Minwei, Trieu, Tuan, Haan, David, Yau, Christina, Hinoue, Toshinori, Liu, Yuexin, Shapira, Ofer, Kumar, Kiran, Mungall, Karen L., Zhang, Hailei, Lee, Jake June-Koo, Berger, Ashton, Gao, Galen F., Zhitomirsky, Binyamin, Liang, Wen-Wei, Zhou, Meng, Moorthi, Sitapriya, Berger, Alice H., Collisson, Eric A., Zody, Michael C., Ding, Li, Cherniack, Andrew D., Getz, Gad, Elemento, Olivier, Benz, Christopher C., Stuart, Josh, Zenklusen, J.C., Beroukhim, Rameen, Chang, Jason C., Campbell, Joshua D., Hayes, D. Neil, Yang, Lixing, Laird, Peter W., Weinstein, John N., Kwiatkowski, David J., Tsao, Ming S., Travis, William D., Khurana, Ekta, Berman, Benjamin P., Hoadley, Katherine A., Robine, Nicolas, Arora, Kanika, Shah, Minita, Shelton, Jennifer, Bowlby, Reanne, Friedl, Verena, Goldman, Mary, Craft, Brian, Heiman, David I., Hajirasouliha, Iman, Ricketts, Camir, Anur, Pavana, Chiotti, Kami E., Caesar-Johnson, Samantha J., Demchok, John A., Ferguson, Martin L., Kemal, Anab, Tarnuzzer, Roy, Wang, Zhining, Yang, Liming, Spellman, Paul T., Raphael, Benjamin, Akbani, Rehan, Zhu, Jingchun, Jones, Steven J.M., Shen, Hui, Meyerson, Matthew, Govindan, Ramaswamy, Imielinski, Marcin

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UCSC cancer genomics browser: update 2011 von Sanborn, J. Zachary, Benz, Stephen C, Craft, Brian, Szeto, Christopher, Kober, Kord M, Meyer, Laurence, Vaske, Charles J, Goldman, Mary, Smith, Kayla E, Kuhn, Robert M, Karolchik, Donna, Kent, W. James, Stuart, Joshua M, Haussler, David, Zhu, Jingchun

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Discovery and antibacterial activity of glabramycin A–C from Neosartorya glabra by an antisense strategy von Jayasuriya, Hiranthi, Zink, Deborah, Basilio, Angela, Vicente, Francisca, Collado, Javier, Bills, Gerald, Goldman, Mary Lee, Motyl, Mary, Huber, Joann, Dezeny, Gabe, Byrne, Kevin, Singh, Sheo B

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Toil enables reproducible, open source, big biomedical data analyses von Vivian, John, Rao, Arjun Arkal, Nothaft, Frank Austin, Ketchum, Christopher, Armstrong, Joel, Novak, Adam, Pfeil, Jacob, Narkizian, Jake, Deran, Alden D, Musselman-Brown, Audrey, Schmidt, Hannes, Amstutz, Peter, Craft, Brian, Goldman, Mary, Rosenbloom, Kate, Cline, Melissa, O'Connor, Brian, Hanna, Megan, Birger, Chet, Kent, W James, Patterson, David A, Joseph, Anthony D, Zhu, Jingchun, Zaranek, Sasha, Getz, Gad, Haussler, David, Paten, Benedict

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The chromatin accessibility landscape of primary human cancers von Corces, M Ryan, Granja, Jeffrey M, Shams, Shadi, Louie, Bryan H, Seoane, Jose A, Zhou, Wanding, Silva, Tiago C, Groeneveld, Clarice, Wong, Christopher K, Cho, Seung Woo, Satpathy, Ansuman T, Mumbach, Maxwell R, Hoadley, Katherine A, Robertson, A Gordon, Sheffield, Nathan C, Felau, Ina, Castro, Mauro A A, Berman, Benjamin P, Staudt, Louis M, Zenklusen, Jean C, Laird, Peter W, Curtis, Christina, Greenleaf, William J, Chang, Howard Y

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Genomic basis for RNA alterations in cancer von Calabrese, Claudia, Davidson, Natalie R., Demircioğlu, Deniz, Fonseca, Nuno A., He, Yao, Kahles, André, Lehmann, Kjong-Van, Liu, Fenglin, Shiraishi, Yuichi, Soulette, Cameron M., Urban, Lara, Greger, Liliana, Li, Siliang, Liu, Dongbing, Perry, Marc D., Xiang, Qian, Zhang, Fan, Zhang, Junjun, Bailey, Peter, Erkek, Serap, Hoadley, Katherine A., Hou, Yong, Huska, Matthew R., Kilpinen, Helena, Korbel, Jan O., Marin, Maximillian G., Markowski, Julia, Nandi, Tannistha, Pan-Hammarström, Qiang, Pedamallu, Chandra Sekhar, Siebert, Reiner, Stark, Stefan G., Su, Hong, Tan, Patrick, Waszak, Sebastian M., Yung, Christina, Zhu, Shida, Awadalla, Philip, Creighton, Chad J., Meyerson, Matthew, Ouellette, B. F. Francis, Wu, Kui, Yang, Huanming, Brazma, Alvis, Brooks, Angela N., Göke, Jonathan, Rätsch, Gunnar, Schwarz, Roland F., Stegle, Oliver, Zhang, Zemin

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Comprehensive Molecular Characterization of Pheochromocytoma and Paraganglioma von Robertson, A. Gordon, Lichtenberg, Tara M., Else, Tobias, Ling, Shiyun, Jefferys, Stuart R., Wenz, Brandon, Korpershoek, Esther, Amelio, Antonio L., Makowski, Liza, Gimenez-Roqueplo, Anne-Paule, Amar, Laurence, Arachchi, Harindra, Asa, Sylvia L., Balasundaram, Miruna, Balu, Saianand, Benz, Christopher, Bodenheimer, Tom, Boice, Lori, Bowen, Jay, Brooks, Denise, Cherniack, Andrew D., Cho, Juok, Cope, Leslie, Danilova, Ludmila, Deutschbein, Timo, Dhalla, Noreen, Eng, Charis, Eschbacher, Jennifer, Fassnacht, Martin, Ferguson, Martin L., Fiddes, Ian, Fishbein, Lauren, Frazer, Scott, Gastier-Foster, Julie M., Getz, Gad, Ghayee, Hans K., Haussler, David, Hayes, D. Neil, Heiman, David I., Hoadley, Katherine A., Holt, Robert A., Huang, Mei, Johnson, Amy R., Jones, Steven J.M., Kebebew, Electron, Korpershoek, Esther, Lee, Darlene, Lerario, Antonio, Leshchiner, Ignaty, Lin, Pei, Liu, Jia, Lolla, Laxmi, Lotan, Yair, Lu, Yiling, Makowski, Liza, Mallery, David, Marra, Marco A., Merino, Maria J., Mete, Ozgur, Meyerson, Matthew, Morris, Scott, Mose, Lisle E., Naresh, Rashi, Newton, Yulia, Ng, Sam, Ni, Ying, Pacak, Karel, Paul, Evan, Penny, Robert, Pihl, Todd, Rao, Arjun, Roach, Jeffrey, Salama, Sofie, Saller, Charles, Sandusky, George, Sbiera, Silviu, Schein, Jacqueline E., Schumacher, Steven E., Shelton, Candace, Shelton, Troy, Sokolov, Artem, Soloway, Matthew G., Thorne, Leigh B., Timmers, Henri J., Tse, Kane, van Berkel, Anouk, Veluvolu, Umadevi, Voet, Doug, Wan, Yunhu, Wang, Tracy S., Weinstein, John N., Wenz, Brandon, Wilkerson, Matthew D., Wise, Lisa, Wong, Christopher, Zhang, Jiashan (Julia), Zhu, Jingchun, Zmuda, Erik, Pacak, Karel, Wilkerson, Matthew D.

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Abstract 911: UCSC Xena for cancer genomics visualization and interpretation von Goldman, Mary, Craft, Brian, Zhu, Jingchun, Haussler, David

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Abstract 2274: Cancer genomics visualization and interpretation using UCSC Xena von Goldman, Mary, Craft, Brian, Zhu, Jingchun, Haussler, David

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UCSC Genome Browser database: update 2011 von Fujita, Pauline A, Rhead, Brooke, Zweig, Ann S, Hinrichs, Angie S, Karolchik, Donna, Cline, Melissa S, Goldman, Mary, Barber, Galt P, Clawson, Hiram, Coelho, Antonio, Diekhans, Mark, Dreszer, Timothy R, Giardine, Belinda M, Harte, Rachel A, Hillman-Jackson, Jennifer, Hsu, Fan, Kirkup, Vanessa, Kuhn, Robert M, Learned, Katrina, Li, Chin H, Meyer, Laurence R, Pohl, Andy, Raney, Brian J, Rosenbloom, Kate R, Smith, Kayla E, Haussler, David, Kent, W. James

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Abstract 2584: The UCSC Xena system for cancer genomics data visualization and interpretation von Goldman, Mary, Craft, Brian, Zhu, Jingchun, Haussler, David

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