|
| Status |
Public on May 17, 2007 |
| Title |
Cold stress, biological rep 3 |
| Sample type |
RNA |
| |
|
| Source name |
7-day-old light-grown rice seedlings
|
| Organism |
Oryza sativa |
| Characteristics |
Supspecies: indica, Variety: IR64
|
| Treatment protocol |
Seedlings were kept at 4±1 degree celsius for 3 h
|
| Growth protocol |
Rice seeds were disinfected with 0.1% HgCl2 for 1 h, thoroughly washed with RO (reverse-osmosis) water and soaked overnight in RO water. Seedlings were grown in RO water, at 28±1 degree celsius for 7 days, in a culture room with a daily photoperiodic cycle of 14 h light and 10 h dark.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction of total RNA was performed using Trizol, according to the manufacturer's instructions
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45 degree celsius on GeneChip Rice Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 using script EukGE-WS2v5.
|
| Scan protocol |
GeneChips were scanned using GeneChip Scanner 3000
|
| Description |
7-day-old light-grown rice seedlings kept at 4 ± 1 degree celsius for 3 h
|
| Data processing |
The data were analyzed with GeneChipOperating Software (GCOS 1.2.1) using Affymetrix default analysis settings and global scaling as normalization method. The mean target intensity of each array was arbitrarily set to 100.
|
| |
|
| Submission date |
Jan 29, 2007 |
| Last update date |
May 17, 2007 |
| Contact name |
Akhilesh K. Tyagi |
| E-mail(s) |
akhilesh@genomeindia.org
|
| Phone |
91-11-24113216
|
| Fax |
91-11-24119430
|
| Organization name |
University of Delhi South Campus
|
| Department |
Department of Plant Molecular Biology
|
| Lab |
Plant Genomics and Molecular Biology
|
| Street address |
Benito Juarez Road
|
| City |
New Delhi |
| State/province |
Delhi |
| ZIP/Postal code |
110 021 |
| Country |
India |
| |
|
| Platform ID |
GPL2025 |
| Series (1) |
| GSE6901 |
Expression data for stress treatment in rice seedlings |
|
