|
| Status |
Public on Mar 30, 2015 |
| Title |
siCtrl treated cells 4h rep 3 (SETX) |
| Sample type |
RNA |
| |
|
| Source name |
A549 cells
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: Control siRNA
infection: A/PR/8/34(ΔNS6) Infection
cell line: A549
|
| Treatment protocol |
A549 cells were transfected with either control siRNA (D-001810-10-05, Dharmacon) or SETX siRNA (23064, Dharmacon) pools using the Lipofectamine™ RNAiMAX Transfection Reagent (Invitrogen). Transfections were performed according to the manufacturer’s instructions. 48 hours post transfection, the cells were infected with the Influenza A/Puerto Rico/8/34(ΔNS1) strain at an multiplicity of infection of 3. Wells of uninfected cells were used as controls for infection. Cells were collected for further processing 4 hours post infection. RNA and protein levels of SETX were quantified to determine knockdown efficiency.
|
| Growth protocol |
Standard culture techniques
|
| Extracted molecule |
total RNA |
| Extraction protocol |
QIAGEN Rneasy mini kit
|
| Label |
biotin
|
| Label protocol |
Biotin-labeled RNA was prepared with MessageAmp™ Premier RNA Amplification Kit (Applied Biosystems)
|
| |
|
| Hybridization protocol |
Standard Illumina protocol
|
| Scan protocol |
Standard Illumina protocol
|
| Description |
Replicate 3
|
| Data processing |
Data was analysed using Genespring GX12.5 . To analyze gene expression changes during stimulation, raw data were subject to quantile normalization and baseline transformation was performed to the median of unstimulated samples of the corresponding siRNA treatment.
|
| |
|
| Submission date |
Dec 03, 2013 |
| Last update date |
Mar 30, 2015 |
| Contact name |
Ivan Marazzi |
| Organization name |
Icahn School of Medicine at Mount Sinai
|
| Department |
Department of Microbiology
|
| Street address |
1468 Madison Avenue
|
| City |
New York |
| ZIP/Postal code |
10029 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE52932 |
Analysis of global gene expression profiles of A549 cells treated with SETX siRNA upon Influenza A/PR/8/34(ΔNS1) Infection |
| GSE52937 |
Senataxin suppresses the antiviral transcriptional response and controls viral biogenesis |
|
