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

ABSTRACT:

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 dramatical

SUBMITTER: Price MN 

PROVIDER: S-EPMC1397872 | biostudies-literature | 2006 Jan

REPOSITORIES: biostudies-literature