|
| Status |
Public on Oct 01, 2016 |
| Title |
control 0h_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
6 day old roots placed on control medium for <5 minutes
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
agent: control medium
time: <5 minutes
developmental stage: seedling
age: 6 days old
tissue: root
|
| Treatment protocol |
Nylon mesh with seedlings was transferred to a fresh control media or media containing 1 uM ACC at time 0
|
| Growth protocol |
6 days of growth in 100 umol/m2sec2 continuous cool white light on a nylon screen (03-100/32; Sefar Filtration) pressed tightly against 1xMS 1% sucrose media (pH 5.6)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Root samples were ground in liquid nitrogen and the RNA was extracted using the Qiagen Plant RNeasy kit. The RNA was then precipitated from the eluate with isopropanol
|
| Label |
biotin
|
| Label protocol |
Approximately 5ug of purified total RNA was processed to produce biotinylated cRNA targets followed by streptavidin-phycoerythrin fluorescent staining according to the standard Affymetrix 3’-IVT labeling protocol
|
| |
|
| Hybridization protocol |
Following fragmentation, 20 ug of labeled cRNA was hybridized for 16 hr at 45 degrees C on the Affymetrix GeneChips. GeneChips were washed and stained using the GeneChip 450 Fluidics Station according to standard Affymetrix operating procedures
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 7G system according to the standard Affymetrix protocol
|
| Description |
c0.0_2
gene expression data from 6 day old arabidopsis roots
|
| Data processing |
Raw data were normalized using systematic variation normalization, and the log2 of the signal intensity is reported.
|
| |
|
| Submission date |
Jul 15, 2016 |
| Last update date |
Oct 01, 2016 |
| Contact name |
Gloria Kressin Muday |
| E-mail(s) |
muday@wfu.edu
|
| Organization name |
Wake Forest University
|
| Department |
Biology
|
| Street address |
1834 Wake Forest Road
|
| City |
WINSTON SALEM |
| State/province |
North Carolina |
| ZIP/Postal code |
27109 |
| Country |
USA |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE84446 |
The kinetics of ethylene-regulated changes in the root transcriptome |
|
