Genome-wide screen for temperature-regulated genes of the obligate intracellular bacterium, Rickettsia typhi

doi:10.1186/1471-2180-8-61

BMC Microbiology
Volume 8

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Azad AF

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Research article

Genome-wide screen for temperature-regulated genes of the obligate intracellular bacterium, Rickettsia typhi

Sheila M Dreher-Lesnick , Shane M Ceraul , M Sayeedur Rahman and Abdu F Azad

Department of Microbiology and Immunology, University of Maryland, 660 W. Redwood Street, Room HH324B, Baltimore, MD 21201, USA

author email corresponding author email

BMC Microbiology 2008, 8:61doi:10.1186/1471-2180-8-61


Published:	15 April 2008

Additional files

Additional file 1:

Analysis of the Affymetrix presence and absent calls for genes on the array. Figure showing overview of all genes on the array sorted by the Affymetrix assigned presence and absence scores for all 6 replicates.

Format: EPS Size: 295KB Download file

Additional file 2:

Final list of genes that were screened for differential expression patterns in response to a shift down in temperature. This excel file is a comprehensive list for the genes selected for continued analysis for this study. It contains the gene IDs, annotations, COG descriptors, fold change values and p values.

Format: XLS Size: 200KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 3:

List of genes with absent calls on all array runs. This excel file contains a list of all the genes that showed low or no signal intensities and were assigned absent calls for all replicates by the Affymetrix GCOS software program.

Format: XLS Size: 17KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 4:

Raw array data. This excel file contains the raw data for all 6 arrays.

Format: XLS Size: 522KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 5:

Venn Diagram outlining overlap in fold change analysis using Spotfire and SAM. A. Venn diagram showing number of genes with significant downregulated fold change using SAM and Spotfire. B. Venn diagram showing number of genes with significant upregulated fold change using SAM and Spotfire.

Format: PPT Size: 21KB Download file

This file can be viewed with: Microsoft PowerPoint Viewer

Additional file 6:

List of primers used for Real Time qRT-PCR validation. This excel file contains the list of genes analyzed for Real Time qRT-PCR and the corresponding primer sequences.

Format: XLS Size: 36KB Download file

This file can be viewed with: Microsoft Excel Viewer