|
| Status |
Public on Feb 15, 2011 |
| Title |
auxin-treated seedlings, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
auxin-treated seedlings, biological rep1
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
Arabidopsis Columbia seedlings at 10 days after germination, Ecotype: Columbia
|
| Treatment protocol |
The seedlings were then transferred to 2 different liquid media containing either 10–7 M 2,4-D or 10–7 M 2,4-D plus 10–6 M brassinazole. After 8 h of treatment, the seedlings were blotted with paper towels to remove excess media and subject to total RNA isolation.
|
| Growth protocol |
Arabidopsis seedlings (Columbia ecotype) were grown for 10 d on 1× MS agar-solidified media under long-day conditions (16:8, white light and dark cycle).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs isolated from each batch were prepared from 3 replicate seedlings using an RNeasy plant mini kit (Qiagen, Germany). The integrities and concentrations of the total RNAs were assessed using a Nanodrop spectrophotometer (Thermo, USA) and by gel electrophoresis before being pooled together.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2002, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
|
| Description |
Gene expression data
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
|
| |
|
| Submission date |
Sep 29, 2008 |
| Last update date |
Feb 15, 2011 |
| Contact name |
Sunghwa Choe |
| E-mail(s) |
shchoe@snu.ac.kr
|
| Organization name |
Seoul National University
|
| Department |
Biological sciences
|
| Lab |
Biochemical genomics
|
| Street address |
Gwanak-Gu Shillim-Dong
|
| City |
Seoul |
| ZIP/Postal code |
151-747 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE12964 |
Auxin stimulates brassinosteroid biosynthesis in Arabidopsis roots |
|
