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
Ectopic expression of MYB46 identifies transcriptional regulatory genes involved in secondary wall biosynthesis in Arabidopsis. Jae-Heung Ko, Won-Chan Kim, Kyung-Hwan Han Plant J 60 649-65 2009
Increasing the coverage of a metapopulation consensus genome by iterative read mapping and assembly. Bas E Dutilh, Martijn A Huynen, Marc Strous Bioinformatics 25 2878-81 2009
ISOLATE: a computational strategy for identifying the primary origin of cancers using high-throughput sequencing. Gerald Quon, Quaid Morris Bioinformatics 25 2882-9 2009
Reaching the depth of the Chinese hamster ovary cell transcriptome. Nitya M Jacob, Anne Kantardjieff, Faraaz Noor Khan Yusufi, Ernest F Retzel, Bhanu Chandra Mulukutla, Song Hui Chuah, Miranda Yap, Wei-Shou Hu Biotechnol Bioeng 105 1002-9 2010
Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing. David Stephen Horner, Giulio Pavesi, Tiziana Castrignanò, Paolo DOnorio De Meo, Sabino Liuni, Michael Sammeth, Ernesto Picardi, Graziano Pesole Brief Bioinform 11 181-97 2010
Genome-wide mapping of alternative splicing in Arabidopsis thaliana. Sergei A Filichkin, Henry D Priest, Scott A Givan, Rongkun Shen, Douglas W Bryant, Samuel E Fox, Weng-Keen Wong, Todd C Mockler Genome Res 20 45-58 2010
Identification of NbME MITE families: potential molecular markers in the microsporidia Nosema bombycis. Jinshan Xu, Min Wang, Xiaoyan Zhang, Fahui Tang, Guoqing Pan, Zeyang Zhou J Invertebr Pathol 103 48-52 2010
Next generation sequence analysis for mitochondrial disorders. Valeria Vasta, Sarah Ng, Emily Turner, Jay Shendure, Si Houn Hahn Genome Med 1 100 2009
Uncovering small RNA-mediated responses to phosphate deficiency in Arabidopsis by deep sequencing. Li-Ching Hsieh, Shu-I Lin, Arthur Chun-Chieh Shih, June-Wei Chen, Wei-Yi Lin, Ching-Ying Tseng, Wen-Hsiung Li, Tzyy-Jen Chiou Plant Physiol 151 2120-32 2009
Genome evolution and adaptation in a long-term experiment with Escherichia coli. Jeffrey E Barrick, Dong Su Yu, Sung Ho Yoon, Haeyoung Jeong, Tae Kwang Oh, Dominique Schneider, Richard E Lenski, Jihyun F Kim Nature 461 1243-7 2009
Screening of human gene promoter activities using transfected-cell arrays. Xi Cheng, Anna Guerasimova, Thomas Manke, Philip Rosenstiel, Stefan Haas, Hans-Joerg Warnatz, Robert Querfurth, Wilfried Nietfeld, Dominique Vanhecke, Hans Lehrach, Marie-Laure Yaspo, Michal Janitz Gene 450 48-54 2010
CCCTC-binding factor and the transcription factor T-bet orchestrate T helper 1 cell-specific structure and function at the interferon-gamma locus. Masayuki Sekimata, Mercedes Pérez-Melgosa, Sara A Miller, Amy S Weinmann, Peter J Sabo, Richard Sandstrom, Michael O Dorschner, John A Stamatoyannopoulos, Christopher B Wilson Immunity 31 551-64 2009
Disease progression and solid tumor survival: A transcriptome decoherence model. Adrian E Platts, Claudia Lalancette, Benjamin R Emery, Douglas T Carrell, Stephen A Krawetz Mol Cell Probes 24 53-60 2010
Human DNA methylomes at base resolution show widespread epigenomic differences. Summary Ryan Lister, Mattia Pelizzola, Robert H Dowen, R David Hawkins, Gary Hon, Julian Tonti-Filippini, Joseph R Nery, Leonard Lee, Zhen Ye, Que-Minh Ngo, Lee Edsall, Jessica Antosiewicz-Bourget, Ron Stewart, Victor Ruotti, A Harvey Millar, James A Thomson, Bing Ren, Joseph R Ecker Nature 462 315-22 2009
Deep short-read sequencing of chromosome 17 from the mouse strains A/J and CAST/Ei identifies significant germline variation and candidate genes that regulate liver triglyceride levels. Ian Sudbery, Jim Stalker, Jared Simpson, Thomas Keane, Alistair Rust, Matthew Hurles, Klaudia Walter, Dee Lynch, Lydia Teboul, Steve Brown, Heng Li, Zemin Ning, Joseph Nadeau, Colleen Croniger, Richard Durbin, David Adams Genome Biol 10 R112 2009
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