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
Genetic diagnosis by whole exome capture and massively parallel DNA sequencing. Murim Choi, Ute I Scholl, Weizhen Ji, Tiewen Liu, Irina R Tikhonova, Paul Zumbo, Ahmet Nayir, Aysin Bakkaloglu, Seza Ozen, Sami Sanjad, Carol Nelson-Williams, Anita Farhi, Shrikant Mane, Richard P Lifton Proc Natl Acad Sci U S A 106 19096-101 2009
Genotype analysis identifies the cause of the "royal disease". Evgeny I Rogaev, Anastasia P Grigorenko, Gulnaz Faskhutdinova, Ellen L W Kittler, Yuri K Moliaka Science 326 817 2009
Identification of differentially expressed miRNAs in chicken lung and trachea with avian influenza virus infection by a deep sequencing approach. Ying Wang, Vinayak Brahmakshatriya, Huifeng Zhu, Blanca Lupiani, Sanjay Reddy, Byung-Jun Yoon, Preethi Gunaratne, Jong Kim, Rui Chen, Junjun Wang, Huaijun Zhou BMC Genomics 10 512 2009
Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L). Mingxiong Pang, Andrew Woodward, Vikram Agarwal, Xueying Guan, Misook Ha, Vanitharani Ramachandran, Xuemei Chen, Barbara Triplett, David Stelly, Z Jeffrey Chen Genome Biol 10 R122 2009
In-depth analysis of Kaposis sarcoma-associated herpesvirus microRNA expression provides insights into the mammalian microRNA-processing machinery. Jennifer L Umbach, Bryan R Cullen J Virol 84 695-703 2010
Identification of viral microRNAs expressed in human sacral ganglia latently infected with herpes simplex virus 2. Jennifer L Umbach, Kening Wang, Shuang Tang, Philip R Krause, Erik K Mont, Jeffrey I Cohen, Bryan R Cullen J Virol 84 1189-92 2010
Genomic targets of the KRAB and SCAN domain-containing zinc finger protein 263. Seth Frietze, Xun Lan, Victor X Jin, Peggy J Farnham J Biol Chem 285 1393-403 2010
The transcription unit architecture of the Escherichia coli genome. Byung-Kwan Cho, Karsten Zengler, Yu Qiu, Young Seoub Park, Eric M Knight, Christian L Barrett, Yuan Gao, Bernhard Ø Palsson Nat Biotechnol 27 1043-9 2009
The genome of the cucumber, Cucumis sativus L. Nat Genet 41 1275-81 2009
Eset partners with Oct4 to restrict extraembryonic trophoblast lineage potential in embryonic stem cells. Ping Yuan, Jianyong Han, Guoji Guo, Yuriy L Orlov, Mikael Huss, Yuin-Han Loh, Lai-Ping Yaw, Paul Robson, Bing Lim, Huck-Hui Ng Genes Dev 23 2507-20 2009
Annotating non-coding transcription using functional genomics strategies. Alistair R R Forrest, Rehab F Abdelhamid, Piero Carninci Brief Funct Genomic Proteomic 8 437-43 2009
Computation for ChIP-seq and RNA-seq studies. Shirley Pepke, Barbara Wold, Ali Mortazavi Nat Methods 6 S22-32 2009
A robust approach to identifying tissue-specific gene expression regulatory variants using personalized human induced pluripotent stem cells. Je-Hyuk Lee, In-Hyun Park, Yuan Gao, Jin Billy Li, Zhe Li, George Q Daley, Kun Zhang, George M Church PLoS Genet 5 e1000718 2009
A genome-wide characterization of microRNA genes in maize. Lifang Zhang, Jer-Ming Chia, Sunita Kumari, Joshua C Stein, Zhijie Liu, Apurva Narechania, Christopher A Maher, Katherine Guill, Michael D McMullen, Doreen Ware PLoS Genet 5 e1000716 2009
Loss of RNA-dependent RNA polymerase 2 (RDR2) function causes widespread and unexpected changes in the expression of transposons, genes, and 24-nt small RNAs. Yi Jia, Damon R Lisch, Kazuhiro Ohtsu, Michael J Scanlon, Daniel Nettleton, Patrick S Schnable PLoS Genet 5 e1000737 2009
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