|
| Status |
Public on Jun 23, 2016 |
| Title |
WT_RAS_day16_1 |
| Sample type |
RNA |
| |
|
| Source name |
HSPCs in vitro, WT;RAS transduced, day 16
|
| Organism |
Mus musculus |
| Characteristics |
genotype: DNMT3AWT;NRASG12D
time point: day 16 post-transduction
cell type: Lin- enriched hematopoietic stem/progenitor cells
|
| Treatment protocol |
Primary HSPC Cells were retrovirally infected with NRAS G12D alone (EV-RAS), DNMT3A R882H with NRAS G12D (RH-RAS) or DNMT3A WT with NRAS G12D (WT-RAS)
|
| Growth protocol |
Lin- enriched murine hematopoietic stem/progenitor cells leukemia progenitor cell lines were cultured in Opti-MEM base medium supplemented with 10% FBS, 1% antibiotics, 50 μM mercaptoethanol and stem cell factor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated with the Rneasy Plus Miniprep Kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
The cDNA was fragmented and terminally labeled with biotin, using the Affymetrix GeneChip WT Terminal Labeling kit (Affymetrix, Santa Clara, CA)
|
| |
|
| Hybridization protocol |
Samples were hybridized with Affymetrix Mouse Gene 2.1 ST Array Strip (Affymetrix) according to the manifacture's instruction.
|
| Scan protocol |
Standard Affymetrix protocol
|
| Data processing |
Hybridization signals were retrieved and normalized, followed by differential expression analysis and statistical analysis using GeneSpring Analysis Platform GX 12.6 (Agilent Technologies).
MoGene-2_1-st.pgf
MoGene-2_1-st.mps
|
| |
|
| Submission date |
Jul 28, 2015 |
| Last update date |
Jun 23, 2016 |
| Contact name |
Rui Lu |
| E-mail(s) |
ruilu1@uabmc.edu
|
| Organization name |
Univ of Alabama at Birmingham
|
| Street address |
1824 6th Ave S
|
| City |
Birmingham |
| State/province |
AL |
| ZIP/Postal code |
35294 |
| Country |
USA |
| |
|
| Platform ID |
GPL17400 |
| Series (2) |
| GSE71437 |
Effect of DNMT3A R882H mutation or WT on gene expression in hematopoietic stem/progenitor cells with NRAS G12D co-transduction (Microarray) |
| GSE71475 |
Epigenetic perturbations by Arg882-mutated DNMT3A potentiate aberrant stem cell gene expression program and acute leukemia development |
|
