|
Status |
Public on May 15, 2008 |
Title |
Col-0_bud_totalRNA_F_1 |
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 1
|
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 |
|