|
| Status |
Public on Oct 20, 2009 |
| Title |
E. coli-CHIR-090-rep3 |
| Sample type |
RNA |
| |
|
| Source name |
E. coli treated with CHIR-090
|
| Organism |
Escherichia coli |
| Characteristics |
strain: K12 derivative MG1655
agent: CHIR-090
|
| Treatment protocol |
E. coli cells was treated with CHIR-090 (1µg/ml) or equal volume of DMSO solvent
|
| Growth protocol |
E. coli strain MG1655 was grown in Luria broth to mid-log phase with an OD at 600 nm of 0.6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Ambion RNAqueous purification kit according to the manufacturer's instructions and the purified RNA sample was treated with Turbo Dnase (Ambion).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2005, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip E. coli Genome 2.0 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
|
| Description |
Gene expression data from E. coli cells treated with CHIR-090.
|
| Data processing |
The data were analyzed with GeneChip Operating Software version 1.4 using the default MAS 5.0 algorithm settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
|
| |
|
| Submission date |
Oct 19, 2009 |
| Last update date |
Oct 19, 2009 |
| Contact name |
Matthew Wilmer Frank |
| E-mail(s) |
[email protected]
|
| Phone |
901-595-5614
|
| Organization name |
St Jude Children's Research Hospital
|
| Department |
Infectious Diseases
|
| Lab |
Dr. Charles Rock
|
| Street address |
262 Danny Thomas Place
|
| City |
Memphis |
| State/province |
TN |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platform ID |
GPL3154 |
| Series (1) |
| GSE18623 |
E. coli gene expression following CHIR-090 treatment |
|
