|
| Status |
Public on Jul 31, 2021 |
| Title |
WT_con_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
WT_con
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Col-0
tissue: whole plant
treatment: control
|
| Treatment protocol |
WT seeds were sown on MS medium with and without 2 mM ethanol and grown for 2 weeks. Then whole plants were collected at ZT 5.
|
| Growth protocol |
Arabidopsis thaliana wild-type plants (Col-0) were grown on MS medium at 22 ﾟC under 16 hr light and 8 hr dark condition.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from whole plants using Plant RNA Isolation Reagent (Life technologies).
|
| Label |
Cy3
|
| Label protocol |
200 ng of Total RNAs were used to prepare for Cy3-labeled cRNA, using Low Input Quick Amp Labeling Kit (Agilent).
|
| |
|
| Hybridization protocol |
600 ng of cRNAs from Poly (A+) RNA samples were hybridized to the microarray (GPL22706) at 65 degree for 17 hours, using Gene Expression Hybridization kit. After hybridization, the microarray was washed with Gene Expression Wash Buffer 1 (Agilent) and Gene Expression Wash Buffer (Agilent), and then dried immediately by brief centrifugation.
|
| Scan protocol |
The microarray was scanned by Agilent DNA Microarray Scanner G2539A ver. C and raw data was extracted using Feature Extraction program ver 9.1.
|
| Description |
WT control
|
| Data processing |
RMA normalization was performed for signals of microarray probes using limma package on R program.
|
| |
|
| Submission date |
Mar 29, 2021 |
| Last update date |
Jul 31, 2021 |
| Contact name |
Akihiro Matsui |
| E-mail(s) |
[email protected]
|
| Phone |
+81-45-503-9587
|
| Organization name |
RIKEN
|
| Department |
Center for Sustainable Resource Science
|
| Lab |
Plant Genomic Network Research Team
|
| Street address |
1-7-22 Suehiro-cho, Tsurumi-ku
|
| City |
Yokohama |
| State/province |
Kanagawa |
| ZIP/Postal code |
230-0045 |
| Country |
Japan |
| |
|
| Platform ID |
GPL22706 |
| Series (1) |
| GSE171036 |
Transcriptome analysis of Arabidopis seedlings grown on MS medium with and without ethanol |
|
