|
| Status |
Public on Aug 01, 2009 |
| Title |
WT at DD12, rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Synechococcus wild type cells collected at hour 12 under continuous dark (DD) after two 12-h:12-h dark/light cycles from a continuous culture.
|
| Organism |
Synechococcus elongatus PCC 7942 = FACHB-805 |
| Characteristics |
Genotype: wild type containing PkaiBC::luxAB construct with a chloramphenicol-resistance gene at the neutral site I (NSI)
|
| Treatment protocol |
Cells were collected at indicated times and stored at -80C until use
|
| Growth protocol |
Synechococcus cells were grown in continuous culture systems in any conditions at 30C under the light (46 micromol/m^2/sec) or the dark
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were extracted with a modified hot-phenol extraction method
|
| Label |
biotin
|
| Label protocol |
Biotinylated cDNA were prepared according to the standard Affymetrix prokaryotic protocol from 10 ug total RNA (Expression Analysis Technical Manual)
|
| |
|
| Hybridization protocol |
Following fragmentation, 1.5 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Synechococcus Custom Arrays (Syel6301a520114F). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
|
| Description |
Gene expression data from Synechococcus elongatus PCC 7942
|
| Data processing |
The data were analyzed with GeneChip Operating Software (GCOS) ver 1.2.1.001 using Affymetrix default analysis settings, divided by corresponding genomic DNA signals (genomic DNA sample), and global scaling as normalization method except for samples under DD conditions. The trimmed average target intensity of each array was arbitrarily set to 1000. For data under DD, genomic-DNA-divided value is shown.
|
| |
|
| Submission date |
Dec 29, 2008 |
| Last update date |
Jun 09, 2010 |
| Contact name |
Hideo Iwasaki |
| E-mail(s) |
hideo-iwasaki@waseda.jp
|
| Organization name |
Waseda University
|
| Department |
Electrical Engineering & Bioscience
|
| Street address |
TWIns 1F 2-2 Wakamatsu-cho, Shinjuku
|
| City |
Tokyo |
| ZIP/Postal code |
162-8480 |
| Country |
Japan |
| |
|
| Platform ID |
GPL8012 |
| Series (1) |
| GSE14225 |
Circadian and diurnal expression data of Synechococcus |
|
