|
| Status |
Public on Dec 09, 2011 |
| Title |
∆relA,∆spoT, rep4 |
| Sample type |
mixed |
| |
|
| Channel 1 |
| Source name |
S. Typhimurium JH3370 (SL1344 ∆relA,∆spoT)
|
| Organism |
Salmonella enterica subsp. enterica serovar Typhimurium |
| Characteristics |
strain: JH3370
genotype: ∆relA,∆spoT
growth phase: early stationary
|
| Growth protocol |
Cultures were grown aerobically in LB to early stationary phase (OD 600=2.3).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction protocols at http://www.ifr.ac.uk/safety/Microarrays/protocols.html
|
| Label |
Cy5
|
| Label protocol |
Labelling protocol at http://www.ifr.ac.uk/safety/Microarrays/protocols.html
|
| |
|
| Channel 2 |
| Source name |
S. Typhimurium genomic DNA
|
| Organism |
Salmonella enterica subsp. enterica serovar Typhimurium |
| Characteristics |
strain: SL1344
genotype: wild type
|
| Growth protocol |
Cultures were grown aerobically in LB to early stationary phase (OD 600=2.3).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Extraction protocols at http://www.ifr.ac.uk/safety/Microarrays/protocols.html
|
| Label |
Cy3
|
| Label protocol |
Labelling protocol at http://www.ifr.ac.uk/safety/Microarrays/protocols.html
|
| |
|
| |
| Hybridization protocol |
Slides were blocked with DCE according to protocol at PMID 11266573. For hybridization and washing protocols, see http://www.ifr.ac.uk/safety/Microarrays/protocols.html
|
| Scan protocol |
Axon GenePix4000A 10 µm resolution scan. See http://www.ifr.ac.uk/safety/Microarrays/default.html#protocols
|
| Description |
JH3370 4
|
| Data processing |
Intensity ratios of channel 1 (cDNA) divided by channel 2 (reference gDNA) signals are calculated using BlueFuse 3.01 (BlueGnome, Cambridge, UK). Data centering was subsequently performed using block median normalization.
|
| |
|
| Submission date |
Dec 08, 2011 |
| Last update date |
Dec 09, 2011 |
| Contact name |
Neil Shearer |
| E-mail(s) |
[email protected]
|
| Organization name |
Institute of Food Research
|
| Department |
Gut Health and Food Safety
|
| Lab |
Salmonella
|
| Street address |
Colney Lane
|
| City |
Norwich |
| State/province |
Norfolk |
| ZIP/Postal code |
NR47UA |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL13609 |
| Series (1) |
| GSE34269 |
Salmonella Typhimurium: Wild type SL1344 Vs. ∆relA, ∆spoT (ppGpp0) strain grown under SPI1-inducing conditions |
|
