|
| Status |
Public on Aug 11, 2011 |
| Title |
s (cy5) / r (cy3) replicate 3 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
[experiment] Strain r
|
| Organism |
Trialeurodes vaporariorum |
| Characteristics |
strain: TV8pyrsel
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted from 500 whitefly eggs, using the Isolate RNA Mini Kit (Bioline) according to the manufacturer’s protocol.
|
| Label |
Cy3
|
| Label protocol |
830 ng of each total RNA was used to generate labelled cRNA following the Agilent's Quick Amp Labelling Protocol (Version 6.5)
|
| |
|
| Channel 2 |
| Source name |
[control] Strain s
|
| Organism |
Trialeurodes vaporariorum |
| Characteristics |
strain: TV1
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted from 500 whitefly eggs, using the Isolate RNA Mini Kit (Bioline) according to the manufacturer’s protocol.
|
| Label |
Cy5
|
| Label protocol |
830 ng of each total RNA was used to generate labelled cRNA following the Agilent's Quick Amp Labelling Protocol (Version 6.5)
|
| |
|
| |
| Hybridization protocol |
Labelled cRNAs were hybridized to arrays and these were washed and scanned as described in Agilent’s Quick Amp Labeling Protocol (Version 6.5).
|
| Scan protocol |
Microarrays were scanned with an Agilent G2505C US10020348 scanner, and fluorescent intensities of individual spots were obtained using the Agilent Feature Extraction software with default Agilent parameters.
|
| Description |
Analysis used total RNA from a susceptible strain (s) as control samples for comparison to the experimental resistant strain r
|
| Data processing |
Data normalization, filtering, dye flipping and statistical analysis were performed using the GeneSpring GX suit. For statistical analysis, a t-test against zero using the Benjamini-Hochberg false discovery rate (FDR) method for multiple testing corrections was used to detect significantly differentially expressed genes. Genes meeting a p value cut-off of 0.01 and showing a transcription ratio > 2 fold in either direction were considered to be differentially transcribed between the two strains.
|
| |
|
| Submission date |
Aug 10, 2011 |
| Last update date |
Aug 11, 2011 |
| Contact name |
Nikos Karatolos |
| E-mail(s) |
nikolaos.karatolos@rothamsted.ac.uk
|
| Organization name |
Rothamsted Research
|
| Street address |
West Common
|
| City |
Harpenden |
| State/province |
Herts |
| ZIP/Postal code |
AL5 2JQ |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL14133 |
| Series (1) |
| GSE31316 |
Over-expression of a Cytochrome P450 is Associated with Resistance to Pyriproxyfen in the Greenhouse Whitefly Trialeurodes vaporariorum |
|
