|
| Status |
Public on Sep 30, 2014 |
| Title |
SB.8.D.rep4 |
| Sample type |
RNA |
| |
|
| Source name |
whole pupae (pool of 10)
|
| Organism |
Culex pipiens |
| Characteristics |
time point (hours post-exposure): 8
condition: diapause-inducing (18°C; 8 h light/16 h dark)
biological replicate: 4
strain: South Bend
|
| Treatment protocol |
On the day of the larva-pupa molt, pupae were collected and placed either back in 25°C; 16 h/8 h (ND) or 18°C; 8 h/16 h (D). Samples were collected 8, 16, and 24 hours later. Pools of 10 were used for total RNA extraction.
|
| Growth protocol |
All samples were reared to the pupa stage at 25°C, with a light/dark cycle of 16 h/8 h. Beef liver powder slurry was provided ad libitum
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNeasy Mini and Qiashredder kits (Qiagen). RNA concentrations were measured using the Nanodrop ND-2000 (ThermoScientific), and RNA quality was assessed using the Bioanalyzer 2100 and RNA 6000 Nano kit (Agilent Technologies).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by the University of Notre Dame Genomics Core facility using the NimbleGen labeling kit following the standard operating protocol. See www.nimblegen.com.
|
| |
|
| Hybridization protocol |
Hybridization was performed by the University of Notre Dame Genomics Core facility using the NimbleGen Hybridization kit following the standard operating protocol. See www.nimblegen.com.
|
| Scan protocol |
Scanning (2 μm resolution) was performed by the University of Notre Dame Genomics Core facility following the standard operating protocol. See www.nimblegen.com.
|
| 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 |
Apr 11, 2014 |
| Last update date |
Sep 30, 2014 |
| Contact name |
David W Severson |
| Organization name |
University of Notre Dame
|
| Department |
Biological Sciences
|
| Lab |
David W Severson
|
| Street address |
44 Galvin Life Sciences
|
| City |
Notre Dame |
| State/province |
IN |
| ZIP/Postal code |
46556 |
| Country |
USA |
| |
|
| Platform ID |
GPL18562 |
| Series (1) |
| GSE56722 |
Whole transcriptome responses among females of the filariasis and arbovirus vector mosquito Culex pipiens implicate TGF-β signaling and chromatin modification as key drivers of diapause induction |
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