|
| Status |
Public on May 15, 2008 |
| Title |
Col-0_bud_totalRNA_F_2 |
| Sample type |
RNA |
| |
|
| Source name |
Immature floral tissue, unopened buds
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
Columbia-0
|
| Treatment protocol |
no treatment
|
| Growth protocol |
All plants were grown in potting soil (Metro Mix 250; Grace-Sierra, Boca Raton, FL) at 23ûC under a 16-hour light/8-hour dark cycle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was isolated from immature floral tissue following instructions from the manufacturer (Qiagen, RNeasy Plant Mini Kit).
|
| Label |
biotin
|
| Label protocol |
Fifteen micrograms of total RNA was used to synthesize double-stranded cDNA using the GeneChip One-Cycle cDNA Synthesis Kit (Affymetrix). Biotin-labeled cRNA was generated by in vitro transcription using the GeneChip IVT Labeling Kit (Affymetrix).
|
| |
|
| Hybridization protocol |
The Arabidopsis Tiling 1.0F whole genome tiling array was hybridized for 16 h, washed and stained with a streptavidin-phycoerythrin conjugate on the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol.
|
| Scan protocol |
GeneChips were scanned on Affymetrix Scanner G7
|
| Description |
Col-0 flower bud total RNA Forward replicate 2
|
| Data processing |
Gene chip data files were processed using TileMap to identify regions of significant changes in gene expression, with a cutoff of 0.6 pp.
|
| |
|
| Submission date |
Apr 03, 2008 |
| Last update date |
May 15, 2008 |
| Contact name |
Joseph R Ecker |
| E-mail(s) |
ecker@salk.edu
|
| Phone |
8584534100
|
| Organization name |
HHMI-Salk-Institute
|
| Department |
Genomic Analysis Laboratory
|
| Lab |
Ecker lab
|
| Street address |
10010 North Torrey Pines Road
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL1979 |
| Series (1) |
| GSE11070 |
A link between RNA metabolism and silencing affecting Arabidopsis development |
|
