|
| Status |
Public on Apr 07, 2013 |
| Title |
mouse 3 untreated |
| Sample type |
RNA |
| |
|
| Source name |
ex vivo differentiated pDCs
|
| Organism |
Mus musculus |
| Characteristics |
genotype: Gfi1f/f; Gfi1bf/f; ERCre
agent: none
strain: C57BL/6
|
| Treatment protocol |
Half the cells were treated with 1uM tamoxifen during differentiation, the other half untreated
|
| Growth protocol |
total bone marrow cells were cultured in RPMI 1640 medium supplemented with 10% (vol/vol) FCS, L-glutamine (2 mM), penicillin (100 g/ml), streptomycin (100 g/ml), 2-mercaptoethanol (50 mM), and 25ng/ml Flt-3L.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
B220+CD11c+ pDCs were sorted, total RNA was extracted using TRIZOL reagent, then purified with QIAGEN RNAeasy mini kit columns
|
| Label |
biotin
|
| Label protocol |
Integrity of total RNAs were checked with Bioanalyzer. Biotinylated cRNA were prepared from the total RNA according to the manufacturer's recommendation (NuGen, San Carlos, CA) from 200ng of total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, 5 ug of fragmented cRNA was hybridized for 18 hr at 45C on GeneChip Mouse Gene 1.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 7G (Affymetrix).
|
| Description |
pDC differentiated in wildtype condition
|
| Data processing |
data was processed using GenePattern (Broad Institute) platform with floor threshold set as 20 and ceiling threshold set as 20000
|
| |
|
| Submission date |
Apr 06, 2013 |
| Last update date |
Apr 07, 2013 |
| Contact name |
Kwan Chow |
| E-mail(s) |
[email protected]
|
| Organization name |
UC Berkeley
|
| Street address |
439 LSA
|
| City |
Berkeley |
| State/province |
CA |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE45837 |
GFI deficiency in plasmacytoid dendritic cells |
|
