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BMC Genomics

, 10:221

First Online: 12 May 2009Received: 11 November 2008Accepted: 12 May 2009

Abstract

BackgroundHigh-throughput cDNA synthesis and sequencing of polyA-enriched RNA is rapidly emerging as a technology competing to replace microarrays as a quantitative platform for measuring gene expression.

ResultsConsequently, 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.

ConclusionUsing 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.

Electronic supplementary materialThe online version of this article doi:10.1186-1471-2164-10-221 contains supplementary material, which is available to authorized users.

Joshua S Bloom, Zia Khan contributed equally to this work.

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Autor: Joshua S Bloom - Zia Khan - Leonid Kruglyak - Mona Singh - Amy A Caudy

Fuente: https://link.springer.com/article/10.1186/1471-2164-10-221







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