|
| Status |
Public on Oct 09, 2014 |
| Title |
Full C2 at T2, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
rosette leaves
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
treatment: two days post infusion with Agrobacterium containing full-length SCTV C2
tissue: Arabidopsis rosette leaves
ecotype: Col-0
age: 4 week old Arabidopsis plants
|
| Treatment protocol |
Arabidopsis rosette leaves were harvested and ground in liquied nitrogen prio to addition of Plant rNA Reagent (Invitrogen Corporation, Carlsbad, CA).
|
| Growth protocol |
Arabidopsis Col-0 plants were sprinkled with water prior to infiltration and whole plants submerged in the Agrobacterium culture ensuring all rosette leaves were submerged in the solution. Vacuum was drawn for 20-30 min at a pressure of approximately 0.05 Bar. Plants were removed from the beaker, replanted into moist soil, covered and placed in a growth chamber under long day conditions (16 h light and 8 h dark) and incubated at 21°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Plant RNA Reagent extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix ATH1 GeneChips (Affymetrix P/N 510690). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Agilent GeneArray Scanner.
|
| Description |
Gene expression data from Arabidopsis rosette leaves two days post infusion with Agrobacterium containing full-length SCTV C2
|
| Data processing |
The data were analyzed with pre-processed and normalized using the Robust Multi-array Average (RMA) procedure in MATLAB Bioinformatics Toolbox.
|
| |
|
| Submission date |
Oct 08, 2014 |
| Last update date |
Oct 09, 2014 |
| Contact name |
Garry Sunter |
| E-mail(s) |
garry.sunter@utsa.edu
|
| Organization name |
The University of Texas at San Antonio
|
| Department |
Biology
|
| Street address |
One UTSA Circle
|
| City |
San Antonio |
| State/province |
TX |
| ZIP/Postal code |
78249 |
| Country |
USA |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE62180 |
Expression data from Arabidopsis rosette leaves |
|
