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Open Access Research article

Transcriptome analysis reveals response regulator SO2426-mediated gene expression in Shewanella oneidensis MR-1 under chromate challenge

Karuna Chourey14, Wei Wei2, Xiu-Feng Wan35 and Dorothea K Thompson2*

Author Affiliations

1 Environmental Sciences Division, Oak Ridge National Laboratory, Bethel Valley Road, Oak Ridge, TN 37831, USA

2 Department of Biological Sciences, Purdue University, 915 W. State Street, West Lafayette, IN 47907, USA

3 Systems Biology Laboratory, Department of Microbiology, Miami University, 32 Pearson Hall, Oxford, OH 45056, USA

4 Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA

5 Influenza Division, Centers for Disease Control and Prevention, 1600 Clifton Road, Atlanta, GA 30333, USA

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BMC Genomics 2008, 9:395  doi:10.1186/1471-2164-9-395

Published: 21 August 2008

Additional files

Additional file 1:

Complete processed microarray dataset for the S. oneidensis Δso2426 mutant compared to the wild type under chromate conditions. This file provides the complete statistically analyzed microarray output for all six time points (5, 30, 60, 90, 180 min, and 24 h) during chromate (0.3 mM) exposure starting with the Gene ID, mean Δso2426 mutant/WT expression ratio, n (number of signal values out of 12 total per gene included in the statistical analysis), statistical significance, gene name, gene product, main role category, and subrole category. ArrayStat™ (Imaging Research, Inc., Ontario, Canada) was used to determine the common error of normalized expression values, remove outliers, and determine statistical significance via a z test for two independent conditions and the false discovery rate method (nominal α, confidence cutoff of p < 0.05).

Format: ZIP Size: 950KB Download file

Open Data