|
| Status |
Public on Jun 21, 2012 |
| Title |
MA-104 Mock infected 0hpi rep2 |
| Sample type |
RNA |
| |
|
| Source name |
MA-104 cells, mock-infected, 0hpi
|
| Organism |
Chlorocebus aethiops |
| Characteristics |
infection: Mock infected
cell line: MA-104
induce ifnβ: YES
hours post infection: 0 hpi
|
| Growth protocol |
Subconfluent monolayers (90% confluency) of Vero E6 and MA-104 cells were infected at multiplicity of infection (moi) of 0.01 or 2 with the viruses rSARS-CoV-ΔE, and rSARS-CoV or rSARS-CoV-MA15-ΔE and rSARS-CoV-MA15. Culture supernatants were collected at different hours post-infection (hpi) and virus titer was determined as previously described.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was prepared using the RNeasy Mini Kit (Qiagen) according to the manufacturer´s instructions. RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer (Agilent Technologies).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 5 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix GeneChips (Human Genome U133 plus 2.0) at 45ºC during 16 hours. Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, 20mM of EDTA and 0,01% tween-20
|
| Scan protocol |
The arrays were stained with streptavidin-ficoeritrin and read at 1.56 μm in a GeneChip Scanner 3000 7G System (Affymetrix, Santa Clara, CA)
|
| Description |
Gene expression data from MA-104 cells mock-infected and collected at 0hpi
|
| Data processing |
GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
|
| |
|
| Submission date |
Jul 12, 2011 |
| Last update date |
Jun 21, 2012 |
| Contact name |
Juan Carlos Oliveros |
| Organization name |
CNB, CSIC
|
| Street address |
Darwin 3
|
| City |
Cantoblanco |
| State/province |
Madrid |
| ZIP/Postal code |
28049 |
| Country |
Spain |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE30589 |
Severe acute respiratory syndrome coronavirus envelope protein regulates cell stress responses and apoptosis |
|
