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

Cole Trapnell, Steven L Salzberg, How to map billions of short reads onto genomes. Nature Biotechnology. ,vol. 27, pp. 455- 457 ,(2009) , 10.1038/NBT0509-455

Michael A. Chapman, Michael S. Lawrence, Jonathan J. Keats, Kristian Cibulskis, Carrie Sougnez, Anna C. Schinzel, Christina L. Harview, Jean-Philippe Brunet, Gregory J. Ahmann, Mazhar Adli, Kenneth C. Anderson, Kristin G. Ardlie, Daniel Auclair, Angela Baker, P. Leif Bergsagel, Bradley E. Bernstein, Yotam Drier, Rafael Fonseca, Stacey B. Gabriel, Craig C. Hofmeister, Sundar Jagannath, Andrzej J. Jakubowiak, Amrita Krishnan, Joan Levy, Ted Liefeld, Sagar Lonial, Scott Mahan, Bunmi Mfuko, Stefano Monti, Louise M. Perkins, Robb Onofrio, Trevor J. Pugh, S. Vincent Rajkumar, Alex H. Ramos, David S. Siegel, Andrey Sivachenko, A. Keith Stewart, Suzanne Trudel, Ravi Vij, Douglas Voet, Wendy Winckler, Todd Zimmerman, John Carpten, Jeff Trent, William C. Hahn, Levi A. Garraway, Matthew Meyerson, Eric S. Lander, Gad Getz, Todd R. Golub, Initial genome sequencing and analysis of multiple myeloma Nature. ,vol. 471, pp. 467- 472 ,(2011) , 10.1038/NATURE09837

H. Li, B. Handsaker, A. Wysoker, T. Fennell, J. Ruan, N. Homer, G. Marth, G. Abecasis, R. Durbin, , The Sequence Alignment/Map format and SAMtools Bioinformatics. ,vol. 25, pp. 2078- 2079 ,(2009) , 10.1093/BIOINFORMATICS/BTP352

A. McKenna, M. Hanna, E. Banks, A. Sivachenko, K. Cibulskis, A. Kernytsky, K. Garimella, D. Altshuler, S. Gabriel, M. Daly, M. A. DePristo, The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data Genome Research. ,vol. 20, pp. 1297- 1303 ,(2010) , 10.1101/GR.107524.110

Andreas Gnirke, Alexandre Melnikov, Jared Maguire, Peter Rogov, Emily M LeProust, William Brockman, Timothy Fennell, Georgia Giannoukos, Sheila Fisher, Carsten Russ, Stacey Gabriel, David B Jaffe, Eric S Lander, Chad Nusbaum, Solution Hybrid Selection with Ultra-long Oligonucleotides for Massively Parallel Targeted Sequencing Nature Biotechnology. ,vol. 27, pp. 182- 189 ,(2009) , 10.1038/NBT.1523

, Integrated genomic analyses of ovarian carcinoma Nature. ,vol. 474, pp. 609- 615 ,(2011) , 10.1038/NATURE10166

Michael F. Berger, Michael S. Lawrence, Francesca Demichelis, Yotam Drier, Kristian Cibulskis, Andrey Y. Sivachenko, Andrea Sboner, Raquel Esgueva, Dorothee Pflueger, Carrie Sougnez, Robert Onofrio, Scott L. Carter, Kyung Park, Lukas Habegger, Lauren Ambrogio, Timothy Fennell, Melissa Parkin, Gordon Saksena, Douglas Voet, Alex H. Ramos, Trevor J. Pugh, Jane Wilkinson, Sheila Fisher, Wendy Winckler, Scott Mahan, Kristin Ardlie, Jennifer Baldwin, Jonathan W. Simons, Naoki Kitabayashi, Theresa Y. MacDonald, Philip W. Kantoff, Lynda Chin, Stacey B. Gabriel, Mark B. Gerstein, Todd R. Golub, Matthew Meyerson, Ashutosh Tewari, Eric S. Lander, Gad Getz, Mark A. Rubin, Levi A. Garraway, The genomic complexity of primary human prostate cancer Nature. ,vol. 470, pp. 214- 220 ,(2011) , 10.1038/NATURE09744