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
MicroRNA-directed siRNA biogenesis in Caenorhabditis elegans. R?gis L Corr?a, Florian A Steiner, Eugene Berezikov, Ren? F Ketting PLoS Genet 6 e1000903 2010
The next generation becomes the now generation. Diego A Martinez, Mary Anne Nelson PLoS Genet 6 e1000906 2010
Duplication and independent selection of cell-wall invertase genes GIF1 and OsCIN1 during rice evolution and domestication. Ertao Wang, Xun Xu, Lin Zhang, Hong Zhang, Lin Lin, Qin Wang, Qun Li, Song Ge, Bao-Rong Lu, Wen Wang, Zuhua He BMC Evol Biol 10 108 2010
Comparative genome analysis provides insights into the evolution and adaptation of Pseudomonas syringae pv. aesculi on Aesculus hippocastanum. Sarah Green, David J Studholme, Bridget E Laue, Federico Dorati, Helen Lovell, Dawn Arnold, Joan E Cottrell, Stephen Bridgett, Mark Blaxter, Edgar Huitema, Richard Thwaites, Paul M Sharp, Robert W Jackson, Sophien Kamoun PLoS One 5 e10224 2010
Characterization of quasispecies of pandemic 2009 influenza A virus (A/H1N1/2009) by de novo sequencing using a next-generation DNA sequencer. Makoto Kuroda, Harutaka Katano, Noriko Nakajima, Minoru Tobiume, Akira Ainai, Tsuyoshi Sekizuka, Hideki Hasegawa, Masato Tashiro, Yuko Sasaki, Yoshichika Arakawa, Satoru Hata, Masahide Watanabe, Tetsutaro Sata PLoS One 5 e10256 2010
One bacterial cell, one complete genome. Tanja Woyke, Damon Tighe, Konstantinos Mavromatis, Alicia Clum, Alex Copeland, Wendy Schackwitz, Alla Lapidus, Dongying Wu, John P McCutcheon, Bradon R McDonald, Nancy A Moran, James Bristow, Jan-Fang Cheng PLoS One 5 e10314 2010
Deciphering the porcine intestinal microRNA transcriptome. Soroush Sharbati, Marc R Friedl?nder, Jutta Sharbati, Lena Hoeke, Wei Chen, Andreas Keller, Peer F St?hler, Nikolaus Rajewsky, Ralf Einspanier BMC Genomics 11 275 2010
A quantitative model of transcriptional regulation reveals the influence of binding location on expression. Kenzie D MacIsaac, Kinyui A Lo, William Gordon, Shmulik Motola, Tali Mazor, Ernest Fraenkel PLoS Comput Biol 6 e1000773 2010
Towards reliable isoform quantification using RNA-SEQ data. Brian E Howard, Steffen Heber BMC Bioinformatics 11 Suppl 3 S6 2010
Infidelity of SARS-CoV Nsp14-exonuclease mutant virus replication is revealed by complete genome sequencing. Lance D Eckerle, Michelle M Becker, Rebecca A Halpin, Kelvin Li, Eli Venter, Xiaotao Lu, Sana Scherbakova, Rachel L Graham, Ralph S Baric, Timothy B Stockwell, David J Spiro, Mark R Denison PLoS Pathog 6 e1000896 2010
Effects of Alu elements on global nucleosome positioning in the human genome. Yoshiaki Tanaka, Riu Yamashita, Yutaka Suzuki, Kenta Nakai BMC Genomics 11 309 2010
Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3 trailers. Jian-You Liao, Li-Ming Ma, Yan-Hua Guo, Yu-Chan Zhang, Hui Zhou, Peng Shao, Yue-Qin Chen, Liang-Hu Qu PLoS One 5 e10563 2010
Most "dark matter" transcripts are associated with known genes. Harm van Bakel, Corey Nislow, Benjamin J Blencowe, Timothy R Hughes PLoS Biol 8 e1000371 2010
Cartography of methicillin-resistant S. aureus transcripts: detection, orientation and temporal expression during growth phase and stress conditions. Marie Beaume, David Hernandez, Laurent Farinelli, C?cile Deluen, Patrick Linder, Christine Gaspin, Pascale Romby, Jacques Schrenzel, Patrice Francois PLoS One 5 e10725 2010
Sensitivity of noninvasive prenatal detection of fetal aneuploidy from maternal plasma using shotgun sequencing is limited only by counting statistics. H Christina Fan, Stephen R Quake PLoS One 5 e10439 2010
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