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 of familial breast cancer using clonal sequencing. Joanne E Morgan, Ian M Carr, Eamonn Sheridan, Carol E Chu, Bruce Hayward, Nick Camm, Helen A Lindsay, Chris J Mattocks, Alexander F Markham, David T Bonthron, Graham R Taylor Hum Mutat 31 484-91 2010
Epigenetic control of the variable expression of a Plasmodium falciparum receptor protein for erythrocyte invasion. Lubin Jiang, María José López-Barragán, Hongying Jiang, Jianbing Mu, Deepak Gaur, Keji Zhao, Gary Felsenfeld, Louis H Miller Proc Natl Acad Sci U S A 107 2224-9 2010
FRT-seq: amplification-free, strand-specific transcriptome sequencing. Lira Mamanova, Robert M Andrews, Keith D James, Elizabeth M Sheridan, Peter D Ellis, Cordelia F Langford, Tobias W B Ost, John E Collins, Daniel J Turner Nat Methods 7 130-2 2010
Parallel, tag-directed assembly of locally derived short sequence reads. Joseph B Hiatt, Rupali P Patwardhan, Emily H Turner, Choli Lee, Jay Shendure Nat Methods 7 119-22 2010
A new strategy for genome assembly using short sequence reads and reduced representation libraries. Andrew L Young, Hatice Ozel Abaan, Daniel Zerbino, James C Mullikin, Ewan Birney, Elliott H Margulies Genome Res 20 249-56 2010
Mind the gaps. Steven L Salzberg Nat Methods 7 105-6 2010
Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution. Hongcang Gu, Christoph Bock, Tarjei S Mikkelsen, Natalie Jäger, Zachary D Smith, Eleni Tomazou, Andreas Gnirke, Eric S Lander, Alexander Meissner Nat Methods 7 133-6 2010
Post-transcriptional regulation of miR-27 in murine cytomegalovirus infection. Amy H Buck, Jonathan Perot, Michael A Chisholm, Diwakar S Kumar, Lee Tuddenham, Valérie Cognat, Lisa Marcinowski, Lars Dölken, Sébastien Pfeffer RNA 16 307-15 2010
Nucleosome landscape and control of transcription in the human malaria parasite. Nadia Ponts, Elena Y Harris, Jacques Prudhomme, Ivan Wick, Colleen Eckhardt-Ludka, Glenn R Hicks, Gary Hardiman, Stefano Lonardi, Karine G Le Roch Genome Res 20 228-38 2010
Defining transcribed regions using RNA-seq. Brian T Wilhelm, Samuel Marguerat, Ian Goodhead, Jürg Bähler Nat Protoc 5 255-66 2010
Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags. Paul A Hohenlohe, Susan Bassham, Paul D Etter, Nicholas Stiffler, Eric A Johnson, William A Cresko PLoS Genet 6 e1000862 2010
A SNP discovery method to assess variant allele probability from next-generation resequencing data. Yufeng Shen, Zhengzheng Wan, Cristian Coarfa, Rafal Drabek, Lei Chen, Elizabeth A Ostrowski, Yue Liu, George M Weinstock, David A Wheeler, Richard A Gibbs, Fuli Yu Genome Res 20 273-80 2010
Complete transcriptome of the soybean root hair cell, a single-cell model, and its alteration in response to Bradyrhizobium japonicum infection. Marc Libault, Andrew Farmer, Laurent Brechenmacher, Jenny Drnevich, Raymond J Langley, Damla D Bilgin, Osman Radwan, David J Neece, Steven J Clough, Gregory D May, Gary Stacey Plant Physiol 152 541-52 2010
Genome-wide end-sequenced BAC resources for the NOD/MrkTac() and NOD/ShiLtJ() mouse genomes. Charles A Steward, Sean Humphray, Bob Plumb, Matthew C Jones, Michael A Quail, Stephen Rice, Tony Cox, Rob Davies, James Bonfield, Thomas M Keane, Michael Nefedov, Pieter J de Jong, Paul Lyons, Linda Wicker, John Todd, Yoshihide Hayashizaki, Omid Gulban, Jayne Danska, Jen Harrow, Tim Hubbard, Jane Rogers, David J Adams Genomics 95 105-10 2010
Leveraging skewed transcript abundance by RNA-Seq to increase the genomic depth of the tree of life. Chris Todd Hittinger, Mark Johnston, John T Tossberg, Antonis Rokas Proc Natl Acad Sci U S A 107 1476-81 2010
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