|
| Status |
Public on Dec 26, 2007 |
| Title |
Seedling_WT_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
10-day-old light-grown wild-type Arabidopsis seedlings
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
Ecotype: Columbia
Tissue: light-grown seedlings
Stage: 10-day-old
Seedlings:wild-type
|
| Growth protocol |
Seeds were surface sterilized with 2% sodium hypochlorite and 0.01% triton X-100 for 5 min followed by rinsing in sterile water for 5 times. Seeds were then suspended in 0.1% agar solution and dispensed on 0.8% agar-gelled MS medium containing 2% sucrose. Plates were sealed and shifted to cold room for 72 h to break dormancy and facilitate uniform germination and then transferred to culture room under continuous illumination.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol reagent
|
| 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 Affymetrix ATH1-121501 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 using script EukGE-WS2v4.
|
| Scan protocol |
GeneChips were scanned using GeneChip Scanner 3000
|
| Description |
Arabidopsis 10-day-old wild-type seedlings grown under normal growth conditions were used for total RNA isolation. The high-quality total RNA (260/280 ratio between 1.9-2.1 and 260/230 ratio >2.0) was used for microarray analysis
|
| Data processing |
Signal intensity was calculated by GCOS1.4 under default parameters with target mean intensity arbitrarily set to 100
|
| |
|
| Submission date |
Jan 20, 2007 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Mukesh Jain |
| Phone |
91-11-26704686
|
| Organization name |
Jawaharlal Nehru University
|
| Street address |
New Mehrauli Road
|
| City |
New Delhi |
| State/province |
New Delhi |
| ZIP/Postal code |
110067 |
| Country |
India |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE6812 |
Gene expression in wild-type and transgenic plants overexpressing rice OsTOP6A1 gene |
|
| Relations |
| Reanalyzed by |
GSE119083 |
