|
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 |
|