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
Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms. Peter A C t Hoen, Yavuz Ariyurek, Helene H Thygesen, Erno Vreugdenhil, Rolf H A M Vossen, Renée X de Menezes, Judith M Boer, Gert-Jan B van Ommen, Johan T den Dunnen Nucleic Acids Res 36 e141 2008
Characterization of microRNAs in serum: a novel class of biomarkers for diagnosis of cancer and other diseases. Xi Chen, Yi Ba, Lijia Ma, Xing Cai, Yuan Yin, Kehui Wang, Jigang Guo, Yujing Zhang, Jiangning Chen, Xing Guo, Qibin Li, Xiaoying Li, Wenjing Wang, Yan Zhang, Jin Wang, Xueyuan Jiang, Yang Xiang, Chen Xu, Pingping Zheng, Juanbin Zhang, Ruiqiang Li, Hongjie Zhang, Xiaobin Shang, Ting Gong, Guang Ning, Jun Wang, Ke Zen, Junfeng Zhang, Chen-Yu Zhang Cell Res 18 997-1006 2008
Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals. Andrew Grimson, Mansi Srivastava, Bryony Fahey, Ben J Woodcroft, H Rosaria Chiang, Nicole King, Bernard M Degnan, Daniel S Rokhsar, David P Bartel Nature 455 1193-7 2008
A diverse set of microRNAs and microRNA-like small RNAs in developing rice grains. Qian-Hao Zhu, Andrew Spriggs, Louisa Matthew, Longjiang Fan, Gavin Kennedy, Frank Gubler, Chris Helliwell Genome Res 18 1456-65 2008
Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells. Alexander Marson, Stuart S Levine, Megan F Cole, Garrett M Frampton, Tobias Brambrink, Sarah Johnstone, Matthew G Guenther, Wendy K Johnston, Marius Wernig, Jamie Newman, J Mauro Calabrese, Lucas M Dennis, Thomas L Volkert, Sumeet Gupta, Jennifer Love, Nancy Hannett, Phillip A Sharp, David P Bartel, Rudolf Jaenisch, Richard A Young Cell 134 521-33 2008
Global identification of microRNA-target RNA pairs by parallel analysis of RNA ends. Marcelo A German, Manoj Pillay, Dong-Hoon Jeong, Amit Hetawal, Shujun Luo, Prakash Janardhanan, Vimal Kannan, Linda A Rymarquis, Kan Nobuta, Rana German, Emanuele De Paoli, Cheng Lu, Gary Schroth, Blake C Meyers, Pamela J Green Nat Biotechnol 26 941-6 2008
A microRNA catalog of the developing chicken embryo identified by a deep sequencing approach. Evgeny A Glazov, Pauline A Cottee, Wesley C Barris, Robert J Moore, Brian P Dalrymple, Mark L Tizard Genome Res 18 957-64 2008
An endogenous small interfering RNA pathway in Drosophila. Benjamin Czech, Colin D Malone, Rui Zhou, Alexander Stark, Catherine Schlingeheyde, Monica Dus, Norbert Perrimon, Manolis Kellis, James A Wohlschlegel, Ravi Sachidanandam, Gregory J Hannon, Julius Brennecke Nature 453 798-802 2008
Highly integrated single-base resolution maps of the epigenome in Arabidopsis. Ryan Lister, Ronan C OMalley, Julian Tonti-Filippini, Brian D Gregory, Charles C Berry, A Harvey Millar, Joseph R Ecker Cell 133 523-36 2008
The transcriptional landscape of the yeast genome defined by RNA sequencing. Ugrappa Nagalakshmi, Zhong Wang, Karl Waern, Chong Shou, Debasish Raha, Mark Gerstein, Michael Snyder Science 320 1344-9 2008
Endogenous siRNAs derived from transposons and mRNAs in Drosophila somatic cells. Megha Ghildiyal, Hervé Seitz, Michael D Horwich, Chengjian Li, Tingting Du, Soohyun Lee, Jia Xu, Ellen L W Kittler, Maria L Zapp, Zhiping Weng, Phillip D Zamore Science 320 1077-81 2008
Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes. Oliver H Tam, Alexei A Aravin, Paula Stein, Angelique Girard, Elizabeth P Murchison, Sihem Cheloufi, Emily Hodges, Martin Anger, Ravi Sachidanandam, Richard M Schultz, Gregory J Hannon Nature 453 534-8 2008
Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5 terminal nucleotide. Shijun Mi, Tao Cai, Yugang Hu, Yemiao Chen, Emily Hodges, Fangrui Ni, Liang Wu, Shan Li, Huanyu Zhou, Chengzu Long, She Chen, Gregory J Hannon, Yijun Qi Cell 133 116-27 2008
Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Ryan D Morin, Michael D OConnor, Malachi Griffith, Florian Kuchenbauer, Allen Delaney, Anna-Liisa Prabhu, Yongjun Zhao, Helen McDonald, Thomas Zeng, Martin Hirst, Connie J Eaves, Marco A Marra Genome Res 18 610-21 2008
Sequence census methods for functional genomics. Barbara Wold, Richard M Myers Nat Methods 5 19-21 2008
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