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| Status |
Public on Jun 17, 2014 |
| Title |
An Integrated Approach to Reconstructing Genome-scale Transcriptional Regulatory Networks [Affymetrix] |
| Platform organism |
Cereibacter sphaeroides 2.4.1 |
| Sample organism |
Cereibacter sphaeroides |
| Experiment type |
Expression profiling by array
|
| Summary |
Rhodobacter sphaeroides is the best studied photosynthetic bacterium, yet much remains unknown about its transcriptional regulatory processes on a genome-scale. We developed a work-flow for genome-scale reconstruction of transcriptional regulatory networks and applied it to sequence and gene expression data sets available for R. sphaeroides. To assess the predictive performance of our reconstructed model, we generated global transcript level and/or protein-DNA interaction data for 3 transcription factors (PpsR, RSP_0489 and RSP_3341). This dataset contains global transcript level analyses for RSP_0489 and RSP_3341 deletion strains, as well as matching wild type controls.
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| Overall design |
Microarray analysis conducted for deletion strains of 2 previously uncharacterized transcription factors predicted to be involved in the regulation of carbon metabolism and iron homeostasis in R. sphaeroides using the R. sphaeroides Affymetrix gene chip. These deletion mutant expression profiles were compared to that of wild type cells to determine differentially expressed genes regulated by these transcription factors.
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| Contributor(s) |
Imam S, Donohue TJ |
| Citation(s) |
25723545 |
| |
| Submission date |
Jun 16, 2014 |
| Last update date |
Apr 13, 2015 |
| Contact name |
Timothy J Donohue |
| E-mail(s) |
tdonohue@bact.wisc.edu
|
| Phone |
608-265-8465
|
| Organization name |
University of Wisconsin - Madison
|
| Department |
Bacteriology
|
| Lab |
Timothy Donohue
|
| Street address |
1552 University Avenue
|
| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53726 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL162 |
[uwyRhodo1a] Rhodobacter sphaeroides 2.4.1 GeneChip |
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| Samples (11)
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| This SubSeries is part of SuperSeries: |
| GSE58658 |
An Integrated Approach to Reconstructing Genome-scale Transcriptional Regulatory Networks |
|
| Relations |
| BioProject |
PRJNA252860 |
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