|
| Status |
Public on Dec 22, 2013 |
| Title |
MNV9 |
| Sample type |
RNA |
| |
|
| Source name |
MNV9
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Mouse RAW cells
|
| Treatment protocol |
RAW264.7 cells were infected with MNV-1 at a multiplicity of infection of 1, or mock infected, for 9 and 18 hours
|
| Growth protocol |
RAW264.7 cells were grown at 37˚C + 5% CO2 in GIBCO DMEM with 4.5 g/L glucose + 2.5 mM HEPES + 5% fetal calf serum, in 6-well plates. Once cells were 70% confluent, infection was performed
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen RNeasy mini kit
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430_2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using an Affymtrix scanner
|
| Description |
Mouse RAW cells mock transfected after 18 h
|
| Data processing |
The data were analyzed with GenePattern, using RMA and quantile normalisation using the ExpressionFileCreator in Genepattern (Reich et al., 2006), preprocessed using PreprocessDataset, comparison was done using ComparativeMarkerSelection.
|
| |
|
| Submission date |
Aug 22, 2013 |
| Last update date |
Dec 22, 2013 |
| Contact name |
Christopher Michael Brown |
| E-mail(s) |
chris.brown@otago.ac.nz
|
| Organization name |
University of Otago
|
| Department |
Biochemistry
|
| Street address |
710 Cumberland St
|
| City |
Dunedin |
| ZIP/Postal code |
9000 |
| Country |
New Zealand |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE50093 |
Characterization of the chemokine response of RAW264.7 cells to infection by murine norovirus |
|
