|
| Status |
Public on Dec 27, 2018 |
| Title |
A13026_CD8a_UNS_2 |
| Sample type |
RNA |
| |
|
| Source name |
bone-marrow derived
|
| Organism |
Mus musculus |
| Characteristics |
phenotype: live, CD11c+SIRPα-CD24high
cell type: cDC1
tissue: bone-marrow derived
strain: C57BL/6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Each cell type was purified by flow cytometry and total RNA was extracted with the Qiagen RNeasy Plus Micro Kit, according to the manufacturer protocol.
|
| Label |
biotin
|
| Label protocol |
50 ng of total RNA from each sample was used to synthesize biotinylated probes, except for pDCs where less material was available (35ng and 8ng), using 2 successive rounds of cRNA amplification (using the NuGEN Ovation Pico WTA System V2 Kit and the NuGEN Encore Biotin Module Kit according to NuGEN recommendations) with appropriate quality control to ensure full length synthesis.
|
| |
|
| 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 (Affymetrix) at a resolution of 0.7 µm.
|
| Description |
eq-cDC1-FL_2
|
| Data processing |
The data were RMA normalized in R and Bioconductor, using the oligo package. The file processed_data_allsamples.txt includes the log2 RMA values for the new and re-analyzed samples and is available on the series record.
|
| |
|
| Submission date |
Oct 26, 2018 |
| Last update date |
Dec 27, 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) |
| GSE121859 |
Comparative gene expression profiling of the three main types of mouse dendritic cells isolated ex vivo from the spleen versus generated in vitro in bone marrow FLT3-L cultures |
|
