|
| Status |
Public on Mar 01, 2015 |
| Title |
HSPC-MA9.31_untreated_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
CD34+ cord blood cells transduced with MLL-AF9 fusion gene
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: CD34+ cord blood cells transduced with MLL-AF9 fusion gene
treatment: no exposure to 30nM panobinostat
|
| Treatment protocol |
HSPC-MA9 cells were cultured with 30 nm panobinostat or vehicle. After 6 and 24 hr cells were harvested, PBS washed and pelleted.
|
| Growth protocol |
Umbilical cord blood CD34+ cells were selected using immunomagnetic beads (Miltenyi Biotech) and stably transduced with retroviruses expressing empty vectors (HSPC control) or the MLL-AF9 (HSPC-MA9) fusion protein. Cells were cultured as described elsewhere ( Wei et al., cell 2008).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using Rneasy mini kit (Quiagen), quality was assessed using the Agilent 2100 Bioanalyzer.
|
| Label |
Cy3
|
| Label protocol |
RNA was labeled using Cyanine-3 (Cy3) with low input quick amp labeling (v6.6, Sept 2012), following the manufacturer´s specificacions.
|
| |
|
| Hybridization protocol |
The Agilent official protocol G4140-90040 for hybridization was used
|
| Scan protocol |
Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2565CA, 3um resolution). We used the AgilentG3_GX_1color method (61x21.6 mm sscan area, Green dye channel, 3um).
|
| Data processing |
The scanned images were analyzed with Feature Extraction Software v10.7 using default parameters (protocol GE1-107_Sept09) to obtain background subtracted and spatially detrended Processed Signal intensities
|
| |
|
| Submission date |
Jan 20, 2014 |
| Last update date |
Mar 01, 2015 |
| Contact name |
Sara Alvarez |
| E-mail(s) |
salvarez@nimgenetics.com
|
| Phone |
+34 672 05 98 89
|
| Organization name |
NIMGenetics
|
| Street address |
C/Faraday 7
|
| City |
Madrid |
| State/province |
Madrid |
| ZIP/Postal code |
28049 |
| Country |
Spain |
| |
|
| Platform ID |
GPL17077 |
| Series (2) |
| GSE54218 |
Aberrant chromatin acetylation in MLL-AF9 leukemia mediates the response to HDAC inhibition (microarray) |
| GSE54348 |
Aberrant chromatin acetylation in MLL-AF9 leukemia mediates the response to HDAC inhibition |
|
