@article {19664,
	title = {Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays},
	journal = {BMC Genomics},
	volume = {10},
	year = {2009},
	month = {2009/12/01/},
	pages = {1 - 10},
	abstract = {Background High-throughput cDNA synthesis and sequencing of poly(A)-enriched RNA is rapidly emerging as a technology competing to replace microarrays as a quantitative platform for measuring gene expression. Results Consequently, we compared full length cDNA sequencing to 2-channel gene expression microarrays in the context of measuring differential gene expression. Because of its comparable cost to a gene expression microarray, our study focused on the data obtainable from a single lane of an Illumina 1 G sequencer. We compared sequencing data to a highly replicated microarray experiment profiling two divergent strains of S. cerevisiae. Conclusion Using a large number of quantitative PCR (qPCR) assays, more than previous studies, we found that neither technology is decisively better at measuring differential gene expression. Further, we report sequencing results from a diploid hybrid of two strains of S. cerevisiae that indicate full length cDNA sequencing can discover heterozygosity and measure quantitative allele-specific expression simultaneously.},
	keywords = {Animal Genetics and Genomics, Life Sciences, general, Microarrays, Microbial Genetics and Genomics, Plant Genetics \& Genomics, proteomics},
	isbn = {1471-2164},
	url = {http://link.springer.com/article/10.1186/1471-2164-10-221},
	author = {Bloom, Joshua S. and Zia Khan and Kruglyak, Leonid and Singh, Mona and Caudy, Amy A.}
}
