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
Fis is essential for capsule production in Pasteurella multocida and regulates expression of other important virulence factors. Jason A Steen, Jennifer A Steen, Paul Harrison, Torsten Seemann, Ian Wilkie, Marina Harper, Ben Adler, John D Boyce PLoS Pathog 6 e1000750 2010
In-depth sequencing of the siRNAs associated with peach latent mosaic viroid infection. Fran?ois Bolduc, Christopher Hoareau, Patrick St-Pierre, Jean-Pierre Perreault BMC Mol Biol 11 16 2010
An "in-depth" description of the small non-coding RNA population of Schistosoma japonicum schistosomulum. Zhangxun Wang, Xiangyang Xue, Jun Sun, Rong Luo, Xindong Xu, Yanyan Jiang, Qingfeng Zhang, Weiqing Pan PLoS Negl Trop Dis 4 e596 2010
Six RNA viruses and forty-one hosts: viral small RNAs and modulation of small RNA repertoires in vertebrate and invertebrate systems. Poornima Parameswaran, Ella Sklan, Courtney Wilkins, Trever Burgon, Melanie A Samuel, Rui Lu, K Mark Ansel, Vigo Heissmeyer, Shirit Einav, William Jackson, Tammy Doukas, Suman Paranjape, Charlotta Polacek, Flavia Barreto dos Santos, Roxana Jalili, Farbod Babrzadeh, Baback Gharizadeh, Dirk Grimm, Mark Kay, Satoshi Koike, Peter Sarnow, Mostafa Ronaghi, Shou-Wei Ding, Eva Harris, Marie Chow, Michael S Diamond, Karla Kirkegaard, Jeffrey S Glenn, Andrew Z Fire PLoS Pathog 6 e1000764 2010
Genome-wide identification of binding sites defines distinct functions for Caenorhabditis elegans PHA-4/FOXA in development and environmental response. Mei Zhong, Wei Niu, Zhi John Lu, Mihail Sarov, John I Murray, Judith Janette, Debasish Raha, Karyn L Sheaffer, Hugo Y K Lam, Elicia Preston, Cindie Slightham, LaDeana W Hillier, Trisha Brock, Ashish Agarwal, Raymond Auerbach, Anthony A Hyman, Mark Gerstein, Susan E Mango, Stuart K Kim, Robert H Waterston, Valerie Reinke, Michael Snyder PLoS Genet 6 e1000848 2010
Analysis of the Legionella longbeachae genome and transcriptome uncovers unique strategies to cause Legionnaires disease. Christel Cazalet, Laura Gomez-Valero, Christophe Rusniok, Mariella Lomma, Delphine Dervins-Ravault, Hayley J Newton, Fiona M Sansom, Sophie Jarraud, Nora Zidane, Laurence Ma, Christiane Bouchier, Jer?me Etienne, Elizabeth L Hartland, Carmen Buchrieser PLoS Genet 6 e1000851 2010
A complete mitochondrial genome sequence from a mesolithic wild aurochs (Bos primigenius). Ceiridwen J Edwards, David A Magee, Stephen D E Park, Paul A McGettigan, Amanda J Lohan, Alison Murphy, Emma K Finlay, Beth Shapiro, Andrew T Chamberlain, Martin B Richards, Daniel G Bradley, Brendan J Loftus, David E Machugh PLoS One 5 e9255 2010
Digital gene expression analysis of two life cycle stages of the human-infective parasite, Trypanosoma brucei gambiense reveals differentially expressed clusters of co-regulated genes. Nicola J Veitch, Paul C D Johnson, Urmi Trivedi, Sandra Terry, David Wildridge, Annette MacLeod BMC Genomics 11 124 2010
Genomic sequence of a mutant strain of Caenorhabditis elegans with an altered recombination pattern. Ann M Rose, Nigel J ONeil, Mikhail Bilenky, Yaron S Butterfield, Nawar Malhis, Stephane Flibotte, Martin R Jones, Marco Marra, David L Baillie, Steven J M Jones BMC Genomics 11 131 2010
Expression in aneuploid Drosophila S2 cells. Yu Zhang, John H Malone, Sara K Powell, Vipul Periwal, Eric Spana, David M Macalpine, Brian Oliver PLoS Biol 8 e1000320 2010
Deep sequencing of target linkage assay-identified regions in familial breast cancer: methods, analysis pipeline and troubleshooting. Juan Manuel Rosa-Rosa, Francisco Javier Gracia-Azn?rez, Emily Hodges, Guillermo Pita, Michelle Rooks, Zhenyu Xuan, Arindam Bhattacharjee, Leonardo Brizuela, Jos? M Silva, Gregory J Hannon, Javier Benitez PLoS One 5 e9976 2010
Transcriptome response to pollutants and insecticides in the dengue vector Aedes aegypti using next-generation sequencing technology. Jean-Philippe David, Eric Coissac, Christelle Melodelima, Rodolphe Poupardin, Muhammad Asam Riaz, Alexia Chandor-Proust, St?phane Reynaud BMC Genomics 11 216 2010
Evolutionary conservation of essential and highly expressed genes in Pseudomonas aeruginosa. Andreas D?tsch, Frank Klawonn, Michael Jarek, Maren Scharfe, Helmut Bl?cker, Susanne H?ussler BMC Genomics 11 234 2010
A timescale for evolution, population expansion, and spatial spread of an emerging clone of methicillin-resistant Staphylococcus aureus. Ulrich N?bel, Janina Dordel, Kevin Kurt, Birgit Strommenger, Henrik Westh, Sanjay K Shukla, Helena Zemlickov?, Rapha?l Leblois, Thierry Wirth, Thibaut Jombart, Fran?ois Balloux, Wolfgang Witte PLoS Pathog 6 e1000855 2010
De novo assembly of a 40 Mb eukaryotic genome from short sequence reads: Sordaria macrospora, a model organism for fungal morphogenesis. Minou Nowrousian, Jason E Stajich, Meiling Chu, Ines Engh, Eric Espagne, Karen Halliday, Jens Kamerewerd, Frank Kempken, Birgit Knab, Hsiao-Che Kuo, Heinz D Osiewacz, Stefanie P?ggeler, Nick D Read, Stephan Seiler, Kristina M Smith, Denise Zickler, Ulrich K?ck, Michael Freitag PLoS Genet 6 e1000891 2010
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