ContEst: estimating cross-contamination of human samples in next-generation sequencing data

Por Cibulskis, Kristian, McKenna, Aaron, Fennell, Tim, Banks, Eric, DePristo, Mark, Getz, Gad
Publicado em 2011

Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples

Por Cibulskis, Kristian, Lawrence, Michael S., Carter, Scott L., Sivachenko, Andrey, Jaffe, David, Sougnez, Carrie, Gabriel, Stacey, Meyerson, Matthew, Lander, Eric S., Getz, Gad
Publicado em 2013

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

Por McKenna, Aaron, Hanna, Matthew, Banks, Eric, Sivachenko, Andrey, Cibulskis, Kristian, Kernytsky, Andrew, Garimella, Kiran, Altshuler, David, Gabriel, Stacey, Daly, Mark, DePristo, Mark A.
Publicado em 2010

A remarkably simple genome underlies highly malignant pediatric rhabdoid cancers

Por Lee, Ryan S., Stewart, Chip, Carter, Scott L., Ambrogio, Lauren, Cibulskis, Kristian, Sougnez, Carrie, Lawrence, Michael S., Auclair, Daniel, Mora, Jaume, Golub, Todd R., Biegel, Jaclyn A., Getz, Gad, Roberts, Charles W.M.
Publicado em 2012

Comprehensive analysis of cancer-associated somatic mutations in class I HLA genes

Por Shukla, Sachet A., Rooney, Michael S., Rajasagi, Mohini, Tiao, Grace, Dixon, Philip M., Lawrence, Michael S., Stevens, Jonathan, Lane, William J., Dellagatta, Jamie L., Steelman, Scott, Sougnez, Carrie, Cibulskis, Kristian, Kiezun, Adam, Brusic, Vladimir, Wu, Catherine J., Getz, Gad
Publicado no Nat Biotechnol (2015)

Absolute quantification of somatic DNA alterations in human cancer

Por Carter, Scott L., Cibulskis, Kristian, Helman, Elena, McKenna, Aaron, Shen, Hui, Zack, Travis, Laird, Peter W., Onofrio, Robert C., Winckler, Wendy, Weir, Barbara A., Beroukhim, Rameen, Pellman, David, Levine, Douglas A., Lander, Eric S., Meyerson, Matthew, Getz, Gad
Publicado no Nat Biotechnol (2012)

Systematic identification of personal tumor-specific neoantigens in chronic lymphocytic leukemia

Por Rajasagi, Mohini, Shukla, Sachet A., Fritsch, Edward F., Keskin, Derin B., DeLuca, David, Carmona, Ellese, Zhang, Wandi, Sougnez, Carrie, Cibulskis, Kristian, Sidney, John, Stevenson, Kristen, Ritz, Jerome, Neuberg, Donna, Brusic, Vladimir, Gabriel, Stacey, Lander, Eric S., Getz, Gad, Hacohen, Nir, Wu, Catherine J.
Publicado em 2014

RNF43 is frequently mutated in colorectal and endometrial cancers

Por Giannakis, Marios, Hodis, Eran, Mu, Xinmeng Jasmine, Yamauchi, Mai, Rosenbluh, Joseph, Cibulskis, Kristian, Saksena, Gordon, Lawrence, Michael S., Qian, ZhiRong, Nishihara, Reiko, Van Allen, Eliezer M., Hahn, William C., Gabriel, Stacey B., Lander, Eric S., Getz, Gad, Ogino, Shuji, Fuchs, Charles S., Garraway, Levi A.
Publicado no Nat Genet (2014)

Genetic and Clonal Dissection of Murine Small Cell Lung Carcinoma Progression by Genome Sequencing

Por McFadden, David G., Papagiannakopoulos, Thales, Taylor-Weiner, Amaro, Stewart, Chip, Carter, Scott L., Cibulskis, Kristian, Bhutkar, Arjun, McKenna, Aaron, Dooley, Alison, Vernon, Amanda, Sougnez, Carrie, Malstrom, Scott, Heimann, Megan, Park, Jennifer, Chen, Frances, Farago, Anna F., Dayton, Talya, Shefler, Erica, Gabriel, Stacey, Getz, Gad, Jacks, Tyler
Publicado em 2014

Widespread genetic heterogeneity in multiple myeloma: implications for targeted therapy

Por Lohr, Jens G., Stojanov, Petar, Carter, Scott L., Cruz-Gordillo, Peter, Lawrence, Michael S., Auclair, Daniel, Sougnez, Carrie, Knoechel, Birgit, Gould, Joshua, Saksena, Gordon, Cibulskis, Kristian, McKenna, Aaron, Chapman, Michael A., Straussman, Ravid, Levy, Joan, Perkins, Louise M., Keats, Jonathan J., Schumacher, Steven E., Rosenberg, Mara, Getz, Gad, Golub, Todd R.
Publicado no Cancer Cell (2014)

A scalable, fully automated process for construction of sequence-ready human exome targeted capture libraries

Por Fisher, Sheila, Barry, Andrew, Abreu, Justin, Minie, Brian, Nolan, Jillian, Delorey, Toni M, Young, Geneva, Fennell, Timothy J, Allen, Alexander, Ambrogio, Lauren, Berlin, Aaron M, Blumenstiel, Brendan, Cibulskis, Kristian, Friedrich, Dennis, Johnson, Ryan, Juhn, Frank, Reilly, Brian, Shammas, Ramy, Stalker, John, Sykes, Sean M, Thompson, Jon, Walsh, John, Zimmer, Andrew, Zwirko, Zac, Gabriel, Stacey, Nicol, Robert, Nusbaum, Chad
Publicado em 2011

Evolution and impact of subclonal mutations in chronic lymphocytic leukemia

Por Landau, Dan A., Carter, Scott L., Stojanov, Petar, McKenna, Aaron, Stevenson, Kristen, Lawrence, Michael S., Sougnez, Carrie, Stewart, Chip, Sivachenko, Andrey, Wang, Lili, Wan, Youzhong, Zhang, Wandi, Shukla, Sachet A., Vartanov, Alexander, Fernandes, Stacey M., Saksena, Gordon, Cibulskis, Kristian, Tesar, Bethany, Gabriel, Stacey, Hacohen, Nir, Meyerson, Matthew, Lander, Eric S., Neuberg, Donna, Brown, Jennifer R., Getz, Gad, Wu, Catherine J.
Publicado em 2013

Colon cancer-derived oncogenic EGFR G724S mutant identified by whole genome sequence analysis is dependent on asymmetric dimerization and sensitive to cetuximab

Por Cho, Jeonghee, Bass, Adam J, Lawrence, Michael S, Cibulskis, Kristian, Cho, Ahye, Lee, Shi-Nai, Yamauchi, Mai, Wagle, Nikhil, Pochanard, Panisa, Kim, Nayoung, Park, Angela KJ, Won, Jonghwa, Hur, Hyung-Suk, Greulich, Heidi, Ogino, Shuji, Sougnez, Carrie, Voet, Douglas, Tabernero, Josep, Jimenez, Jose, Baselga, Jose, Gabriel, Stacey B, Lander, Eric S, Getz, Gad, Eck, Michael J, Park, Woong-Yang, Meyerson, Matthew
Publicado em 2014

Drug-sensitive FGFR2 mutations in endometrial carcinoma

Por Dutt, Amit, Salvesen, Helga B., Chen, Tzu-Hsiu, Ramos, Alex H., Onofrio, Robert C., Hatton, Charlie, Nicoletti, Richard, Winckler, Wendy, Grewal, Rupinder, Hanna, Megan, Wyhs, Nicolas, Ziaugra, Liuda, Richter, Daniel J., Trovik, Jone, Engelsen, Ingeborg B., Stefansson, Ingunn M., Fennell, Tim, Cibulskis, Kristian, Zody, Michael C., Akslen, Lars A., Gabriel, Stacey, Wong, Kwok-Kin, Sellers, William R., Meyerson, Matthew, Greulich, Heidi
Publicado em 2008

Integrative analysis of the melanoma transcriptome

Por Berger, Michael F., Levin, Joshua Z., Vijayendran, Krishna, Sivachenko, Andrey, Adiconis, Xian, Maguire, Jared, Johnson, Laura A., Robinson, James, Verhaak, Roel G., Sougnez, Carrie, Onofrio, Robert C., Ziaugra, Liuda, Cibulskis, Kristian, Laine, Elisabeth, Barretina, Jordi, Winckler, Wendy, Fisher, David E., Getz, Gad, Meyerson, Matthew, Jaffe, David B., Gabriel, Stacey B., Lander, Eric S., Dummer, Reinhard, Gnirke, Andreas, Nusbaum, Chad, Garraway, Levi A.
Publicado em 2010

Exome Sequencing, ANGPTL3 Mutations, and Familial Combined Hypolipidemia

Por Musunuru, Kiran, Pirruccello, James P., Do, Ron, Peloso, Gina M., Guiducci, Candace, Sougnez, Carrie, Garimella, Kiran V., Fisher, Sheila, Abreu, Justin, Barry, Andrew J., Fennell, Tim, Banks, Eric, Ambrogio, Lauren, Cibulskis, Kristian, Kernytsky, Andrew, Gonzalez, Elena, Rudzicz, Nicholas, Engert, James C., DePristo, Mark A., Daly, Mark J., Cohen, Jonathan C., Hobbs, Helen H., Altshuler, David, Schonfeld, Gustav, Gabriel, Stacey B., Yue, Pin, Kathiresan, Sekar
Publicado em 2010

SF3B1 and Other Novel Cancer Genes in Chronic Lymphocytic Leukemia

Por Wang, Lili, Lawrence, Michael S., Wan, Youzhong, Stojanov, Petar, Sougnez, Carrie, Stevenson, Kristen, Werner, Lillian, Sivachenko, Andrey, DeLuca, David S., Zhang, Li, Zhang, Wandi, Vartanov, Alexander R., Fernandes, Stacey M., Goldstein, Natalie R., Folco, Eric G., Cibulskis, Kristian, Tesar, Bethany, Sievers, Quinlan L., Shefler, Erica, Gabriel, Stacey, Hacohen, Nir, Reed, Robin, Meyerson, Matthew, Golub, Todd R., Lander, Eric S., Neuberg, Donna, Brown, Jennifer R., Getz, Gad, Wu, Catherine J.
Publicado em 2011

Genetic Mapping and Exome Sequencing Identify Variants Associated with Five Novel Diseases

Por Puffenberger, Erik G., Jinks, Robert N., Sougnez, Carrie, Cibulskis, Kristian, Willert, Rebecca A., Achilly, Nathan P., Cassidy, Ryan P., Fiorentini, Christopher J., Heiken, Kory F., Lawrence, Johnny J., Mahoney, Molly H., Miller, Christopher J., Nair, Devika T., Politi, Kristin A., Worcester, Kimberly N., Setton, Roni A., DiPiazza, Rosa, Sherman, Eric A., Eastman, James T., Francklyn, Christopher, Robey-Bond, Susan, Rider, Nicholas L., Gabriel, Stacey, Morton, D. Holmes, Strauss, Kevin A.
Publicado em 2012

Mutations in Isocitrate Dehydrogenase 1 and 2 Occur Frequently in Intrahepatic Cholangiocarcinomas and Share Hypermethylation Targets with Glioblastomas

Por Wang, Pu, Dong, Qiongzhu, Zhang, Chong, Kuan, Pei-Fen, Liu, Yufeng, Jeck, William R., Andersen, Jesper B., Jiang, Wenqing, Savich, Gleb L., Tan, Ting-Xu, Auman, J. Todd, Hoskins, Janelle M., Misher, Anne D., Moser, Catherine D., Yourstone, Scott M., Kim, Jin Woo, Cibulskis, Kristian, Getz, Gad, Hunt, Heike V., Thorgeirsson, Snorri S., Roberts, Lewis R., Ye, Dan, Guan, Kun-Liang, Xiong, Yue, Qin, Lun-Xiu, Chiang, Derek Y.
Publicado em 2012

MAP kinase pathway alterations in BRAF-mutant melanoma patients with acquired resistance to combined RAF/MEK inhibition

Por Wagle, Nikhil, Van Allen, Eliezer M., Treacy, Daniel J., Frederick, Dennie T., Cooper, Zachary A., Taylor-Weiner, Amaro, Rosenberg, Mara, Goetz, Eva M., Sullivan, Ryan J., Farlow, Deborah N., Friedrich, Dennis C., Anderka, Kristin, Perrin, Danielle, Johannessen, Cory M., McKenna, Aaron, Cibulskis, Kristian, Kryukov, Gregory, Hodis, Eran, Lawrence, Donald P., Fisher, Sheila, Getz, Gad, Gabriel, Stacey B., Carter, Scott L., Flaherty, Keith T., Wargo, Jennifer A., Garraway, Levi A.
Publicado em 2013