|
| Status |
Public on May 26, 2011 |
| Title |
NaCl 2M-rep7 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
D.radiodurans R1 exposed to 2M NaCl
|
| Organism |
Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539 |
| Characteristics |
stress treatment: exposed to 2M NaCl
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using RiboEX (GeneAll biotechnology, Korea) following manufacturer's instructions
|
| Label |
Cy3
|
| Label protocol |
50 µg of total RNA were primed with 2 µl of 3 µg/µl random primer at 70°C for 10 min, then reversed transcribed at 42°C for 2 h in the presence of 400 U SuperScript II RTase (Invitrogen), and 2 µl of 50X aminoallyl-dNTP mix, 25 µM Cy3-labeling dye
|
| |
|
| Channel 2 |
| Source name |
untreated wild type
|
| Organism |
Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539 |
| Characteristics |
stress treatment: none (reference)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using RiboEX (GeneAll biotechnology, Korea) following manufacturer's instructions
|
| Label |
Cy5
|
| Label protocol |
50 µg of total RNA were primed with 2 µl of 3 µg/µl random primer at 70°C for 10 min, then reversed transcribed at 42°C for 2 h in the presence of 400 U SuperScript II RTase (Invitrogen), and 2 µl of 50X aminoallyl-dNTP mix, 25 µM Cy3-labeling dye
|
| |
|
| |
| Hybridization protocol |
The labeled cDNA pools were mixed, dried, and dissolved with hybridization buffer. The probes were denatured by heating and hybridized simultaneously to a prehybridized DNA microarray slide for 16 h at 42°C in a MAUI Hybridization System (BioMicro Systems, Salt Lake City, UT, USA) with gentle mixing, After hybridization, slides were washed sequential
|
| Scan protocol |
Scanned on an Genepix Pro 4000B scanner.
Images were quantified using Genepix Pro Software (version 6.0).
|
| Description |
Control vs 2M NaCl
|
| Data processing |
LOWESS normalized, performed in GeneSpringGX 11 software, Agilent.
|
| |
|
| Submission date |
May 25, 2011 |
| Last update date |
May 26, 2011 |
| Contact name |
Im Seong Hun |
| E-mail(s) |
lsh1573@nate.com
|
| Organization name |
Korea Atomic Energy Research Institute
|
| Street address |
Jeongeup 580-185, Republic of KoreaInstitute
|
| City |
Jeongeup |
| ZIP/Postal code |
580-185 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL10060 |
| Series (1) |
| GSE29516 |
0.3M NaCl vs Control and 2M NaCl vs Control |
|
