|
| Status |
Public on Jun 01, 2012 |
| Title |
phyR deletion strain_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Caulobacter phyR null strain harvested at OD=0.3
|
| Organism |
Caulobacter vibrioides |
| Characteristics |
protocol: phyR deletion
|
| Treatment protocol |
Experiment is measuring steady-state differences in the transcriptomes of a phyR in-frame deletion strain versus a xylose-inducible phyR overexpression strain
|
| Growth protocol |
Each strain was cultured in M2 xylose defined medium at 30 degrees C and grown to OD660=0.3.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol RNA extraction, followed by DNAseI treatment. RNA was re-extracted using acid phenol, alcohol precipitated, and resuspended in deionized water.
|
| Label |
biotin
|
| Label protocol |
cDNA was column purified, fragmented using DNAseI (GE Life Sciences, Piscataway, NJ), and end labeled using GeneChip labeling reagent (Affymetrix, P/N 900542).
|
| |
|
| Hybridization protocol |
Labeled cDNA was hybridized to GeneChip CauloHi1 according to GeneChip Expression analysis technical manual (Affymetrix, Santa Clara, CA).
|
| Scan protocol |
After hybridization for 16 hours at 50°C, arrays were washed using protocol PRO-GE-W52-V3 and stained on a GeneChipFluidics Station (Affymetrix) according to the Genechip Expression analysis technical manual.
|
| Description |
n/a
|
| Data processing |
The arrays were scanned using the Affymetrix Gene Chip Scanner 3000 7G and CEL intensity files were generated by GCOS (Gene Chip Operating Software ) v. 1.4.
|
| |
|
| Submission date |
Apr 05, 2010 |
| Last update date |
Jun 01, 2012 |
| Contact name |
Sean Crosson |
| E-mail(s) |
crosson4@msu.edu
|
| Phone |
5178845345
|
| Organization name |
Michigan State University
|
| Department |
Dept. Microbiology and Molecular Genetics
|
| Street address |
567 Wilson Rd
|
| City |
East Lansing |
| State/province |
Michigan |
| ZIP/Postal code |
48824 |
| Country |
USA |
| |
|
| Platform ID |
GPL10149 |
| Series (1) |
| GSE21205 |
Comparing the transcriptional profiles of a Caulobacter crescentus phyR null mutant to a xylose-inducible phyR overexpression strain |
|
