|
| Status |
Public on Feb 02, 2015 |
| Title |
RSP_1663+pIND5-RSP_1663_Rep1 |
| Sample type |
RNA |
| |
|
| Source name |
ΔRSP_1663 (ΔCcmR) cells overexpression RSP_1663 from an IPTG inducible plasmid (pIND5) grown aerobically
|
| Organism |
Cereibacter sphaeroides |
| Characteristics |
strain: ΔRSP_1663 (ΔCcmR)
|
| Growth protocol |
R. sphaeroides strains that were grown in 500 ml cultures in roux bottles aerobically (bubbling with 69% N2, 30% O2, 1% CO2) on Sistrom's minimal media and harvested at exponential phase.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from R. sphaeroides cells by hot acid phenol extraction.
|
| Label |
biotin
|
| Label protocol |
Synthesized cDNA was labeled with BioArray™ Terminal labeling kit with biotin-ddUTP
|
| |
|
| Hybridization protocol |
not provided
|
| Scan protocol |
not provided
|
| Description |
Gene expression data from a ΔRSP_1663 (ΔCcmR) overexpressing RSP_1663 obtained under aerobic conditions.
|
| Data processing |
Microarray datasets were normalized by Robust Multichip Average (RMA) to log2 scale with background adjustment and quantile normalization. Statistical analysis of normalized data to identify differentially expressed genes was done using the limma package. Correction for multiple testing was done using Benjamini-Hochberg correction. All analyses were conducted in the R statistical programming environment.
|
| |
|
| Submission date |
Nov 19, 2014 |
| Last update date |
Feb 02, 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 |
| |
|
| Platform ID |
GPL162 |
| Series (2) |
| GSE63448 |
Microarray analysis of Rhodobacter sphaeroides CceR and AkgR deletion strains |
| GSE63450 |
CceR and AkgR regulate of central carbon and energy metabolism in α-Proteobacteria |
|
