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BMCBI
2006

OpWise: Operons aid the identification of differentially expressed genes in bacterial microarray experiments

9 years 1 months ago
OpWise: Operons aid the identification of differentially expressed genes in bacterial microarray experiments
Background: Differentially expressed genes are typically identified by analyzing the variation between replicate measurements. These procedures implicitly assume that there are no systematic errors in the data even though several sources of systematic error are known. Results: OpWise estimates the amount of systematic error in bacterial microarray data by assuming that genes in the same operon have matching expression patterns. OpWise then performs a Bayesian analysis of a linear model to estimate significance. In simulations, OpWise corrects for systematic error and is robust to deviations from its assumptions. In several bacterial data sets, significant amounts of systematic error are present, and replicate-based approaches overstate the confidence of the changers dramatically, while OpWise does not. Finally, OpWise can identify additional changers by assigning genes higher confidence if they are consistent with other genes in the same operon. Conclusion: Although microarray data ca...
Morgan N. Price, Adam P. Arkin, Eric J. Alm
Added 10 Dec 2010
Updated 10 Dec 2010
Type Journal
Year 2006
Where BMCBI
Authors Morgan N. Price, Adam P. Arkin, Eric J. Alm
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