SEQanswers

Go Back   SEQanswers > Applications Forums > RNA Sequencing



Similar Threads
Thread Thread Starter Forum Replies Last Post
RNA-Seq: How to Analyze Gene Expression Using RNA-Sequencing Data. Newsbot! Literature Watch 1 03-11-2013 07:57 AM
RNA-Seq: Characterizing short read sequencing for gene discovery and RNA-Seq analysis Newsbot! Literature Watch 0 01-17-2012 05:50 AM
RNA-Seq: Protocol dependence of sequencing-based gene expression measurements. Newsbot! Literature Watch 0 05-17-2011 02:10 AM
RNA-Seq: Whole transcriptome sequencing reveals gene expression and splicing differen Newsbot! Literature Watch 0 02-02-2011 02:00 AM
RNA-Seq to gene expression GERALD RNA Sequencing 1 09-07-2010 03:12 AM

Reply
 
Thread Tools
Old 06-02-2009, 06:24 AM   #1
zkhan
Junior Member
 
Location: Princeton, NJ

Join Date: May 2008
Posts: 1
Default qPCR vs gene expression arrays vs short read RNA sequencing

Hi! I wanted to share our experiences with RNA-seq. Don't give up on your gene expression arrays just yet! Zia

http://www.biomedcentral.com/1471-2164/10/221

Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays
Joshua S Bloom, Zia Khan, Leonid Kruglyak, Mona Singh, Amy A Caudy
BMC Genomics 2009, 10:221 (12 May 2009)

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.
zkhan is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 05:06 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO