|
| Status |
Public on Jun 27, 2011 |
| Title |
Sf301_LB_Sta_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Shigella flexneri 2a strain 301 wild-type
|
| Organism |
Shigella flexneri 2a str. 301 |
| Characteristics |
genotype: Wild-type
phenotype: normal
growth condition: at 37℃ in LB medium, in stationary phase.
|
| Growth protocol |
S. flexneri 2a strain 301(Sf301) was routinely grown at 37℃ overnight on Luria-Bertani(LB) agar plate containing 0.01% congo red. A single red colony was inoculated into LB medium without antibiotics and grown overnight at 37℃ and 250 r.p.m. For RNA extraction, an overnight culture of bacteria was diluted 1: 50 into 100 ml fresh medium with aeration by rotary shaking (250 r.p.m.)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using a Promega SV total RNA purification kit according to the manufacturer’s instructions.
|
| Label |
Cy5
|
| Label protocol |
The separate labeling reactions were pooled after each respective Cy dye incorporation step and then again divided into aliquots to minimize inconsistencies in probe generation. cDNA was purified with a QIAquick PCR Purification kit (QIAGEN) according to the QIAquick Spin handbook.
|
| |
|
| Hybridization protocol |
Labeled cDNA samples were individually hybridized to the microarray according to the NimbleGen standard operating procedure. Competitive hybridization was done three times for the sample from one condition.
|
| Scan protocol |
Microarrays were scanned at a 5μm resolution using a GenePix 4000B scanner (Axon Instruments). Data were extracted using NimbleScan (NimbleGen).
|
| Description |
This sample is of wild-type Shigella flexneri 2a strain 301 at 37℃ in LB medium, in stationary phase. It is the seond of three wild-type biological replicates used in this experiment, each from separate cultures.
|
| Data processing |
NMPP(Bioinformatics, 2006,22:2955-2957.)
|
| |
|
| Submission date |
Jul 07, 2010 |
| Last update date |
Jun 27, 2011 |
| Contact name |
Junping Peng |
| E-mail(s) |
[email protected]
|
| Organization name |
Chinese center for disease control and prevention
|
| Lab |
State key lab for molecular virology and genetic engineering
|
| Street address |
No 6, Rongjing Eastern Street, BDA
|
| City |
Beijing |
| ZIP/Postal code |
100176 |
| Country |
China |
| |
|
| Platform ID |
GPL10653 |
| Series (1) |
| GSE22800 |
Expression analysis of Shigella flexneri 2a strain 301 |
|
