|
| Status |
Public on Dec 01, 2015 |
| Title |
540121A02_(2)Col 0 (NO) 15 min Rep 1 |
| Sample type |
RNA |
| |
|
| Source name |
A. thaliana Col-0 15 min after NO
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Col-0
developmental stage: 12-d-old
tissue: seedling
|
| Treatment protocol |
The pulse of NO was performed by incubating plants in a tightly sealed transparent box after injection of 300 ppm of pure NO gas (Linde AG, Germany) during 5 min.
|
| Growth protocol |
Samples were harvested 12 h after dawn of day 12 after sowing and seedlings were grown under long days (16 h light / 8 h darkness) photoperiodic conditions.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from wild type and NO-deficient plants was isolated and purified by the Micro-to-Midi Total RNA Purification System from Invitrogen (Carlsbad, CA, USA).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
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| |
|
| Hybridization protocol |
Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.
|
| Scan protocol |
Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| Description |
It is the first of three independent wild-type biological replicates treated with NO for 15 min.
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
|
| |
|
| Submission date |
Nov 30, 2015 |
| Last update date |
Dec 01, 2015 |
| Contact name |
Jose Leon |
| E-mail(s) |
[email protected]
|
| Phone |
+34 963877882
|
| Organization name |
IBMCP (CSIC-UPV)
|
| Street address |
CPI Edificio 8E, Ingeniero Fausto Elio s/n
|
| City |
Valencia |
| ZIP/Postal code |
46022 |
| Country |
Spain |
| |
|
| Platform ID |
GPL13970 |
| Series (1) |
| GSE75509 |
IBMCP JLeon lab NO-exposed (15, 30 and 60 min after pulse of 300 ppm NO during 5 min) wt Col-0 versus untreated wt Col -0 |
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