|
| Status |
Public on Apr 01, 2014 |
| Title |
Vibrio cholerae rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Vibrio cholerae O395N1
|
| Organism |
Vibrio cholerae |
| Characteristics |
genotype/variation: Wild-type
|
| Growth protocol |
Vibrio cholerae O395N1 was grown to early-log phase (O.D.600nm 0.2) aerobically at 30°C in LB (pH6.5).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA) and the RNAprotect reagent (Qiagen) and DNA was removed by TURBO DNA-free™ Kit (Ambion). RNA quality and concentration was determined by analysis with an Agilent 2100 bioanalyzer at the Center for Genome Research and Biocomputing (Oregon State University, Corvallis, OR USA).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by NimbleGen standard operating protocol. See www.nimblegen.com.
|
| |
|
| Hybridization protocol |
Hybridization was performed by NimbleGen standard operating protocol. See www.nimblegen.com.
|
| Scan protocol |
Scanning was performed by NimbleGen standard operating protocol. See www.nimblegen.com.
|
| Description |
This sample is of wild-type Vibrio cholerae O395N1. It is the first of two wild-type biological replicates used in this experiment, each from separate cultures.
|
| Data processing |
The raw data (.pair file) was 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 as implemented in the NimbleScan software package.
|
| |
|
| Submission date |
Mar 31, 2014 |
| Last update date |
Apr 01, 2014 |
| Contact name |
Claudia Hase |
| Organization name |
Oregon State University
|
| Street address |
105 Magruder Hall
|
| City |
Corvallis |
| ZIP/Postal code |
97331-4801 |
| Country |
USA |
| |
|
| Platform ID |
GPL18506 |
| Series (1) |
| GSE56387 |
Expression analysis of Vibrio cholerae O395N1 delta-nqrA-F mutant |
|
