At Illumina, we enjoy seeing how researchers are successfully using our products for a wide range of genetic analysis applications. We are proud to share this list of publications from the growing community of Illumina customers, collaborators, and internal scientists. If we missed one, please send the citation to publications@illumina.com.

Title Authors Source Year
Virus discovery by deep sequencing and assembly of virus-derived small silencing RNAs. Qingfa Wu, Yingjun Luo, Rui Lu, Nelson Lau, Eric C Lai, Wan-Xiang Li, Shou-Wei Ding Proc Natl Acad Sci U S A 107 1606-11 2010
Population resequencing reveals local adaptation of Arabidopsis lyrata to serpentine soils. Thomas L Turner, Elizabeth C Bourne, Eric J Von Wettberg, Tina T Hu, Sergey V Nuzhdin Nat Genet 42 260-3 2010
Evolution of MRSA during hospital transmission and intercontinental spread. Simon R Harris, Edward J Feil, Matthew T G Holden, Michael A Quail, Emma K Nickerson, Narisara Chantratita, Susana Gardete, Ana Tavares, Nick Day, Jodi A Lindsay, Jonathan D Edgeworth, Hermínia de Lencastre, Julian Parkhill, Sharon J Peacock, Stephen D Bentley Science 327 469-74 2010
Genetics: Decoding a national treasure. Kim C Worley, Richard A Gibbs Nature 463 303-4 2010
Functional and evolutionary insights from the genomes of three parasitoid Nasonia species.    , John H Werren, Stephen Richards, Christopher A Desjardins, Oliver Niehuis, Jürgen Gadau, John K Colbourne, Leo W Beukeboom, Claude Desplan, Christine G Elsik, Cornelis J P Grimmelikhuijzen, Paul Kitts, Jeremy A Lynch, Terence Murphy, Deodoro C S G Oliveira, Christopher D Smith, Louis van de Zande, Kim C Worley, Evgeny M Zdobnov, Maarten Aerts, Stefan Albert, Victor H Anaya, Juan M Anzola, Angel R Barchuk, Susanta K Behura, Agata N Bera, May R Berenbaum, Rinaldo C Bertossa, Márcia M G Bitondi, Seth R Bordenstein, Peer Bork, Erich Bornberg-Bauer, Marleen Brunain, Giuseppe Cazzamali, Lesley Chaboub, Joseph Chacko, Dean Chavez, Christopher P Childers, Jeong-Hyeon Choi, Michael E Clark, Charles Claudianos, Rochelle A Clinton, Andrew G Cree, Alexandre S Cristino, Phat M Dang, Alistair C Darby, Dirk C de Graaf, Bart Devreese, Huyen H Dinh, Rachel Edwards, Navin Elango, Eran Elhaik, Olga Ermolaeva, Jay D Evans, Sylvain Foret, Gerald R Fowler, Daniel Gerlach, Joshua D Gibson, Do Science 327 343-8 2010
Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrest of Pol II in Drosophila. Sergei Nechaev, David C Fargo, Gilberto dos Santos, Liwen Liu, Yuan Gao, Karen Adelman Science 327 335-8 2010
A comprehensive catalogue of somatic mutations from a human cancer genome. Erin D Pleasance, R Keira Cheetham, Philip J Stephens, David J McBride, Sean J Humphray, Chris D Greenman, Ignacio Varela, Meng-Lay Lin, Gonzalo R Ordóñez, Graham R Bignell, Kai Ye, Julie Alipaz, Markus J Bauer, David Beare, Adam Butler, Richard J Carter, Lina Chen, Anthony J Cox, Sarah Edkins, Paula I Kokko-Gonzales, Niall A Gormley, Russell J Grocock, Christian D Haudenschild, Matthew M Hims, Terena James, Mingming Jia, Zoya Kingsbury, Catherine Leroy, John Marshall, Andrew Menzies, Laura J Mudie, Zemin Ning, Tom Royce, Ole B Schulz-Trieglaff, Anastassia Spiridou, Lucy A Stebbings, Lukasz Szajkowski, Jon Teague, David Williamson, Lynda Chin, Mark T Ross, Peter J Campbell, David R Bentley, P Andrew Futreal, Michael R Stratton Nature 463 191-6 2010
Chronic active B-cell-receptor signalling in diffuse large B-cell lymphoma. R Eric Davis, Vu N Ngo, Georg Lenz, Pavel Tolar, Ryan M Young, Paul B Romesser, Holger Kohlhammer, Laurence Lamy, Hong Zhao, Yandan Yang, Weihong Xu, Arthur L Shaffer, George Wright, Wenming Xiao, John Powell, Jian-Kang Jiang, Craig J Thomas, Andreas Rosenwald, German Ott, Hans Konrad Muller-Hermelink, Randy D Gascoyne, Joseph M Connors, Nathalie A Johnson, Lisa M Rimsza, Elias Campo, Elaine S Jaffe, Wyndham H Wilson, Jan Delabie, Erlend B Smeland, Richard I Fisher, Rita M Braziel, Raymond R Tubbs, J R Cook, Dennis D Weisenburger, Wing C Chan, Susan K Pierce, Louis M Staudt Nature 463 88-92 2010
Identification of MIR390a precursor processing-defective mutants in Arabidopsis by direct genome sequencing. Josh T Cuperus, Taiowa A Montgomery, Noah Fahlgren, Russell T Burke, Tiffany Townsend, Christopher M Sullivan, James C Carrington Proc Natl Acad Sci U S A 107 466-71 2010
Sequencing newly replicated DNA reveals widespread plasticity in human replication timing. R Scott Hansen, Sean Thomas, Richard Sandstrom, Theresa K Canfield, Robert E Thurman, Molly Weaver, Michael O Dorschner, Stanley M Gartler, John A Stamatoyannopoulos Proc Natl Acad Sci U S A 107 139-44 2010
Building the sequence map of the human pan-genome. Ruiqiang Li, Yingrui Li, Hancheng Zheng, Ruibang Luo, Hongmei Zhu, Qibin Li, Wubin Qian, Yuanyuan Ren, Geng Tian, Jinxiang Li, Guangyu Zhou, Xuan Zhu, Honglong Wu, Junjie Qin, Xin Jin, Dongfang Li, Hongzhi Cao, Xueda Hu, Hélène Blanche, Howard Cann, Xiuqing Zhang, Songgang Li, Lars Bolund, Karsten Kristiansen, Huanming Yang, Jun Wang, Jian Wang Nat Biotechnol 28 57-63 2010
Sequencing technologies - the next generation. Michael L Metzker Nat Rev Genet 11 31-46 2010
Hypoxia-responsive microRNAs and trans-acting small interfering RNAs in Arabidopsis. Dov Moldovan, Andrew Spriggs, Jun Yang, Barry J Pogson, Elizabeth S Dennis, Iain W Wilson J Exp Bot 61 165-77 2010
High-resolution nucleosome mapping reveals transcription-dependent promoter packaging. Assaf Weiner, Amanda Hughes, Moran Yassour, Oliver J Rando, Nir Friedman Genome Res 20 90-100 2010
A single-base resolution map of an archaeal transcriptome. Omri Wurtzel, Rajat Sapra, Feng Chen, Yiwen Zhu, Blake A Simmons, Rotem Sorek Genome Res 20 133-41 2010
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