|
| Status |
Public on Oct 14, 2014 |
| Title |
shl-2 Pool 1, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
seedlings from shl-2-2 mutant plants grown in SD conditions
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
tissue: seedling
ecotype: Landsberg erecta
genotype/variation: shl-2
|
| Treatment protocol |
No further treatment was applied to the samples before harvesting.
|
| Growth protocol |
Plants were grown for 18 days in solid MS medium and in SD conditions.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNA from complete plants was isolated using EZNA Plant RNA kit from OMEGA bio-tek. RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 500 ng total RNA (GeneChip 3' IVT Express Kit).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GENECHIP MODEL). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
|
| Description |
Gene expression data from seedlings of shl-2-2 mutant plants grown in SD conditions
|
| Data processing |
GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
|
| |
|
| Submission date |
Oct 26, 2011 |
| Last update date |
Oct 14, 2014 |
| Contact name |
Alfonso Mouriz-Villar |
| E-mail(s) |
[email protected]
|
| Phone |
+34913364580
|
| Organization name |
INIA
|
| Department |
Biotechnology
|
| Lab |
179
|
| Street address |
Campus de Montegancedo
|
| City |
Pozuelo de Alarcon |
| State/province |
Madrid |
| ZIP/Postal code |
28223 |
| Country |
Spain |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE33270 |
Expression data from Arabidopsis thaliana WT (Ler), ebs and shl-2 mutants grown in SD conditions |
|
