|
| Status |
Public on Dec 01, 2012 |
| Title |
Grape control 96 hr rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Grapevine leaf control 96 hours
|
| Organism |
Vitis vinifera |
| Characteristics |
time: N/A
tissue: leaf
treatment: control
cultivar: Riesling
|
| Treatment protocol |
Grapevine (cv Riesling plants) were exposed to 10-15 P. ficus indivduals by enclosing insects within a clip cage attached to the leaf for periods of 6 or 96 hours
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Spectrum™ Plant Total RNA Kit (Sigma-Aldrich)
|
| Label |
Cy3
|
| Label protocol |
cDNA samples were labeled with Cy3 using a NimbleGen One-Color DNA labeling kit
|
| |
|
| Hybridization protocol |
Samples were hybridised to slides using a NimbleGen hybridization system.
|
| Scan protocol |
The slide was scanned using an Axon GenePix® 4000A scanner, after which resulting images were imported into NimbleScan software for grid alignment and expression data analyses.
|
| Data processing |
The data were normalized using quantile normalization and gene calls generated using a robust multi-chip average (RMA) algorithm (Irizarry). Analysis of differentially expressed genes was performed using linear modelling and empirical Bayes methods, as implemented in the Limma R package (Smyth 2005). P-values were adjusted for multiple testing with the Benjamini and Hochberg method (Benjamini & Hochberg).
NimbleScan software computed signal intensities.
|
| |
|
| Submission date |
Sep 23, 2011 |
| Last update date |
Dec 01, 2012 |
| Contact name |
Alicia Eva Timm |
| E-mail(s) |
aetimm@gmail.com
|
| Organization name |
Forschungsanstalt Geisenheim
|
| Department |
Phytomedicine
|
| Street address |
Vone-Lade-Str 1
|
| City |
Geisenheim |
| ZIP/Postal code |
65366 |
| Country |
Germany |
| |
|
| Platform ID |
GPL13936 |
| Series (1) |
| GSE32343 |
Grapevine response to Planococcus ficus feeding |
|
