|
| Status |
Public on Sep 23, 2016 |
| Title |
rep2 AE GM- |
| Sample type |
RNA |
| |
|
| Source name |
RE Lin-/c-Kit+ HSPCs without GM-CSF treatment
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl/6J
cell type: MigR1-RUNX1-ETO (RE) HSPCs
treatment: No Treatment
|
| Growth protocol |
Lineage negative bone marrow cells were isolated from C57B6/J mice. Cells were cultured in StemSpan SFEM with 15% FBS, 10 ng/ml rmIL-3, 50 ng/ml rmSCF, 50 ng/ml rmFLT3L, 1% penicillin-streptomycin, and 1% glutamine, at the concentration of 2 x 10^5 cells/ml, and prestimulated overnight. Cells were retrovirally transduced with control MigR1 (Mig) or MigR1-HA-RUX1-ETO (RE) for 24 hours. After transduction, cells were washed, resuspended in StemSpan SFEM with or without addition of 10ng/ml of rmGM-CSF for 24 hours. After a total of 48 hours of RUNX1-ETO expression and 24 hours of GM-CSF treatment, GFP+/Lineage-/c-Kit+ cells were sorted for RNA isolation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using column purification with the QIAGEN RNeasy mini kit in accordance with the protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
|
| Label |
biotin
|
| Label protocol |
Total RNAs were labeled and hybridized on Illumina Mouse Ref-8 v2.0 Expression BeadChips following manufacturer’s protocolÂ
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
RE_2
Replicate 2
|
| Data processing |
The data was normalized using invariant set normalization with dCHIP.
|
| |
|
| Submission date |
Sep 01, 2015 |
| Last update date |
Sep 23, 2016 |
| Contact name |
Dong-Er Zhang |
| E-mail(s) |
d7zhang@ucsd.edu
|
| Phone |
8588225372
|
| Organization name |
UCSD Moores Cancer Center
|
| Street address |
3855 Health Sciences Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE72567 |
RUNX1-ETO (RE) murine hematopoietic stem/progenitor cells (HSPCs) treated with GM-CSF |
|
