|
| Status |
Public on Jan 01, 2013 |
| Title |
EcfO constitutive vector control |
| Sample type |
RNA |
| |
|
| Source name |
Bacteroides fragilis, ATCC25285, vector control
|
| Organism |
Bacteroides fragilis NCTC 9343 |
| Characteristics |
synonym: Bacteroides fragilis ATCC 25285
transformation construct: vector control
|
| Growth protocol |
Overnight cultures of the vector control or overexpressing strain were diluted 1/50 into complex media and grown under anaerobic conditions at 37C to mid-logarithmic phase at an A550 of 0.3
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated by the hot phenol method and treated as described by Sund et al, 2008, Mol. Microbiol.67:129-142.
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by NimbleGen Systems Inc., using standard protocol as described on their website.
|
| |
|
| Hybridization protocol |
Hybridization was performed by NimbleGen Systems Inc., using standard protocol as described on their website.
|
| Scan protocol |
Scanning was performed by NimbleGen Systems Inc., using standard protocol as described on their website.
|
| Description |
empty vector control for EcfO constitutive expression experiment
|
| Data processing |
Raw data (pair files) were subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction by NimbleGen Systems as described on their web site.
|
| |
|
| Submission date |
Feb 03, 2012 |
| Last update date |
Jan 01, 2013 |
| Contact name |
Charles Jeffrey Smith |
| E-mail(s) |
smithcha@ecu.edu
|
| Phone |
252-744-2700
|
| Fax |
252-744-3104
|
| Organization name |
East Carolina University
|
| Department |
Microbiology & Immunology
|
| Street address |
600 Moye Blvd.
|
| City |
Greenville |
| State/province |
NC |
| ZIP/Postal code |
27834 |
| Country |
USA |
| |
|
| Platform ID |
GPL15187 |
| Series (2) |
| GSE35536 |
Identification of the Bacteroides fragilis EcfO regulon 1 |
| GSE35539 |
Characterization of the EcfO regulon |
|
