|
| Status |
Public on Sep 25, 2012 |
| Title |
Control-non-(VPA)-stimulated_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
24h cultured LSK cells with growth factors only
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl/6
tissue: Bone Marrow
cell type: hematopoietic stem/progenitor cell (HSPC)
cell phenotype: L-S+K+
agent: control
|
| Growth protocol |
Freshly isolated hematopoietic stem/progenitor cells, defined by L-S+K+ phenotype, were stimulated for 24h in the presence or in the absence of 1mM valproic acid (VPA), in a liquid medium supplemented with fetal calf serum, murine stem cell factor and recombinant murine granulocyte/macrophage-colony stimulating factor. After 24h culture the cells were collected in RNA lysis buffer (Qiagen) for gene expression studies.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the RNeasy Mini kit (Qiagen) in accordance with the manufacturer’s protocol.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared using the Illumina TotalPrep RNA Amplification Kit (Ambion) according to the manufacturer’s specifications starting with 100 ng total RNA.
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
Ctrl-1
|
| Data processing |
Non-normalized data: GenomeStudio-computed raw signal intensity.
Normalized data: GeneSpring GX 11.5-computed quantile-normalization was applied on log2-transformed data
|
| |
|
| Submission date |
Sep 20, 2012 |
| Last update date |
Sep 25, 2012 |
| Contact name |
Leonid Bystrykh |
| E-mail(s) |
l.bystrykh@umcg.nl
|
| Organization name |
University Medical Center Groningen
|
| Department |
European Research Institute for the Biology of Ageing - ERIBA
|
| Lab |
Ageing Biology and Stem Cells
|
| Street address |
A. Deusinglaan 1
|
| City |
Groningen |
| State/province |
Groningen |
| ZIP/Postal code |
9713 AV |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE41020 |
Sca-1 is an early-response target of histone deacetylase inhibitors and marks hematopoietic cells with enhanced function |
|
