|
| Status |
Public on Jul 01, 2011 |
| Title |
proliferating leaf, control, 24h, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Wild type, proliferating leaf, control, 24h
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Col-0
tissue: 3rd true leaf
age: leaf 3_10DAS plants
genotype: wild-type
|
| Treatment protocol |
plant were grown on nylon mesh (PROSEP) overlaying 0.5MS medium (control) under 16 h light/ 8 h dark cycle at 22°C, at 9DAS seedlings were transferred to control media
|
| Growth protocol |
plant were grown on nylon mesh (PROSEP) overlaying 0.5MS medium (control) under 16 h light/ 8 h dark cycle at 22°C, at 9DAS seedlings were transferred to control media
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Proliferating leaves were disected in RNAlater, Trizol extraction (Invitrogen) followed by clean-up by RNeasy plant mini kit (Qiagen) , according to manufacturer protocol
|
| Label |
biotin
|
| Label protocol |
Standard affymetrix protocol
|
| |
|
| Hybridization protocol |
Standard affymetrix protocol
|
| Scan protocol |
Standard affymetrix protocol
|
| Description |
leaf size around 0.1mm2
|
| Data processing |
Expression data were processed using RMA (background correction, normalization and summarization) in BioConductor (Gentleman et al. 2004; Irizarry et al. 2003a; 2003b). An alternative CDF (tinesath1cdf) was used, where each probe is assigned uniquely to one transcript and is excluded if it aligns to a different transcript with 24 or more perfect matches (Casneuf et al. 2007; http://www.bioconductor.org/packages/release/data/experiment/html/tinesath1cdf.html)
|
| |
|
| Submission date |
Jun 02, 2010 |
| Last update date |
Jul 01, 2011 |
| Contact name |
aleksandra skirycz |
| E-mail(s) |
[email protected]
|
| Organization name |
Ghent University
|
| Department |
Plant System Biology
|
| Street address |
Technologiepark 927
|
| City |
Gent |
| ZIP/Postal code |
9052 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL8455 |
| Series (1) |
| GSE22107 |
Responses of fully proliferating Arabidopsis leaves to short-term osmotic stress |
|
