|
| Status |
Public on Mar 31, 2009 |
| Title |
Microarray analysis of strain EG4 vs. Nipponbare |
| Platform organism |
Oryza sativa |
| Sample organism |
Oryza sativa Japonica Group |
| Experiment type |
Expression profiling by array
|
| Summary |
In the japonica rice strain Gimbozu EG4, the DNA transposon mPing is actively transposing to attain over 1,000 copies, whereas in Nipponbare, where this element is virtually silent and has only 50 copies. To analyze the impact of such a massive amplification of transposable element on gene regulation, we performed the rice 44k oligo microarray analysis.
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| Overall design |
Total RNA was extracted from 7-day-old seedlings of EG4 and Nipponbare plants, grown in a greenhouse at at 26˚C and subjected to 44k oligo-DNA microarray with 4 biological replicates.
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| Contributor(s) |
Naito K, Zhang F, Tsukiyama T, Saito H, Okumoto Y, Tanisaka T |
| Citation(s) |
19847266 |
| Submission date |
Feb 26, 2009 |
| Last update date |
Dec 06, 2012 |
| Contact name |
Ken Naito |
| E-mail(s) |
knaito@plantbio.uga.edu
|
| Phone |
706-542-1857
|
| Organization name |
University of Georgia
|
| Department |
Plant Biology
|
| Lab |
Wessler Lab
|
| Street address |
4505 Miller Plant Sciences Building
|
| City |
Athens |
| State/province |
GA |
| ZIP/Postal code |
30602 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL6864 |
Agilent-015241 Rice Gene Expression 4x44K Microarray (Feature Number version) |
|
| Samples (2) |
| GSM375557 |
dye-swap experiment between EG4 and Nipponbare 1 |
| GSM375568 |
dye-swap experiment between EG4 and Nipponbare 2 |
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| Relations |
| BioProject |
PRJNA114739 |
