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Status |
Public on Jun 27, 2011 |
Title |
Sf301_LB_Lag_rep3 |
Sample type |
RNA |
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Source name |
Shigella flexneri 2a strain 301 wild-type
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Organism |
Shigella flexneri 2a str. 301 |
Characteristics |
genotype: Wild-type phenotype: normal growth condition: at 37℃ in LB medium, in lag phase.
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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.)
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Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was isolated using a Promega SV total RNA purification kit according to the manufacturer’s instructions.
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Label |
Cy5
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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.
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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.
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Scan protocol |
Microarrays were scanned at a 5μm resolution using a GenePix 4000B scanner (Axon Instruments). Data were extracted using NimbleScan (NimbleGen).
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Description |
This sample is of wild-type Shigella flexneri 2a strain 301 at 37℃ in LB medium, in lag phase. It is the third of three wild-type biological replicates used in this experiment, each from separate cultures.
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Data processing |
NMPP(Bioinformatics, 2006,22:2955-2957.)
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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
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Street address |
No 6, Rongjing Eastern Street, BDA
|
City |
Beijing |
ZIP/Postal code |
100176 |
Country |
China |
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Platform ID |
GPL10653 |
Series (1) |
GSE22800 |
Expression analysis of Shigella flexneri 2a strain 301 |
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