|
| Status |
Public on Oct 05, 2018 |
| Title |
UN_2 |
| Sample type |
RNA |
| |
|
| Source name |
Spleen
|
| Organism |
Mus musculus |
| Characteristics |
phenotype: Lineage[CD3, CD19, Ly6G, NK1.1](neg), CD11b(neg), CD11c(low) CD317(high)
mouse: C57BL/6
cell type: WT CD45.2 pDC
treatment: Uninfected
|
| Treatment protocol |
Mice were untreated or infected for 1.5 days with a salivary gland stock of the Smith strain of MCMV that was administered through intraperitoneal injection.
|
| Growth protocol |
Not applicable.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from sorted cells with the Qiagen RNeasy PLUS Micro Kit, according to the manufacturer protocol.
|
| Label |
biotin
|
| Label protocol |
3 to 20 ng of total RNA from each sample was used to synthesize biotinylated probes, using the NuGEN Ovation Pico WTA System V2 Kit followed by the NuGEN Encore Biotin Module Kit, according to NuGEN recommendations, with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
|
| |
|
| Hybridization protocol |
Following fragmentation and end-labeling, 2 μg of cDNAs were hybridized for 16 hours at 45°C on Affymetrix GeneChip Mouse Gene 1.0 ST arrays. The chips were washed and stained in the GeneChip Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G at a resolution of 0.7 µm.
|
| Description |
MDD_56b
|
| Data processing |
Raw data (.CEL files) were extracted from the scanned images using the Affymetrix GeneChip® Command Console (AGCC) version 4.1.2. The data were RMA normalized in R and Bioconductor, using the oligo package.
|
| |
|
| Submission date |
Dec 08, 2017 |
| Last update date |
Oct 26, 2018 |
| Contact name |
Thien-Phong Vu Manh |
| Organization name |
CIML
|
| Street address |
163 avenue de Luminy
|
| City |
marseille |
| ZIP/Postal code |
13288 |
| Country |
France |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE107876 |
Dissecting cell-intrinsic roles of MyD88 and IFN-I signalling in pDC responses to a viral infection in vivo |
|
| Relations |
| Reanalyzed by |
GSE115450 |
| Reanalyzed by |
GSE121859 |
