|
| Status |
Public on Sep 09, 2009 |
| Title |
WT_toc1-2_LL_CT16 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Wild-type plants (C24)
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: C24
|
| Treatment protocol |
Samples were collected at Circadian Time (CT) 16
|
| Growth protocol |
Seedlings were grown on MS3 medium under 12-hour light:12-hour dark (LD) cycles for 10 days followed by two days under constant light conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extractions were performed with RNeasy Mini kit (Qiagen)
|
| Label |
Cy3,Cy5
|
| Label protocol |
Performed as previously described (Adie et al., 2007)
|
| |
|
| Channel 2 |
| Source name |
TOC1 mutant plants toc1-2 (C24)
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: C24
|
| Treatment protocol |
Samples were collected at Circadian Time (CT) 16
|
| Growth protocol |
Seedlings were grown on MS3 medium under 12-hour light:12-hour dark (LD) cycles for 10 days followed by two days under constant light conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extractions were performed with RNeasy Mini kit (Qiagen)
|
| Label |
Cy5,Cy3
|
| Label protocol |
Performed as previously described (Adie et al., 2007)
|
| |
|
| |
| Hybridization protocol |
Performed as previously described (Adie et al., 2007)
|
| Scan protocol |
Performed as previously described (Adie et al., 2007)
|
| Description |
The control is labeled with Cy3 in the first array (raw data file1) and with Cy5 in the second (raw data file2); toc1-2 is labeled with Cy5 int the first array (raw data file1) and with Cy3 in the second (raw data file2)
|
| Data processing |
Raw data was processed with SOLAR (BIOALMA). The data were scaled and normalized with LOWESS procedure (Yang et al., 2002). T statistics and local Z scores were calculated as previously described (Quackenbush et al., 2002).
|
| |
|
| Submission date |
Sep 08, 2009 |
| Last update date |
Sep 08, 2009 |
| Contact name |
Paloma Mas |
| E-mail(s) |
pmmgmc@cid.csic.es
|
| Phone |
34-93-400-6100
|
| Organization name |
Consorcio CSIC-IRTA-UAB (CRAG)
|
| Department |
Genetica Molecular
|
| Street address |
C/ Jordi Girona 18-26
|
| City |
Barcelona |
| ZIP/Postal code |
08034 |
| Country |
Spain |
| |
|
| Platform ID |
GPL1941 |
| Series (1) |
| GSE18001 |
Genome-wide analysis of toc1-2 transcriptional networks |
|
