|
| Status |
Public on Sep 25, 2015 |
| Title |
MV411_DMSO_3hrs_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
MV411 cells, DMSO, 3hrs
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MV-4-11
treatment: DMSO
cell type: MLL-AF4-rearranged AML
|
| Treatment protocol |
Cells were plated (12-well) in triplicate at 500,000 to 800,000 cells/mL and incubated in the presence of DMSO or 25nM CA for 3hrs. Cells were then washed twice with cold PBS, and snap frozen.
|
| Growth protocol |
MV4;11 cells were grown in RPMI-1640 supplemented with 10% FBS, 100 U/mL penicillin and 100 μg/mL streptomycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated (RNeasy Plus Microkit, Qiagen or TRIzol, Life Technologies), processed, and hybridized to the Human U133 Plus 2.0 microarray (Affymetrix).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol using the GeneChip 3' IVT Express Kit from 100 ng total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 7G Plus.
|
| Description |
500,000-800,000 cells were treated with DMSO for 3hrs
|
| Data processing |
Arrays were corrected for background, normalized and log2-transformed using the rma function of the affy Bioconductor package.
|
| |
|
| Submission date |
Jan 15, 2015 |
| Last update date |
Sep 25, 2015 |
| Contact name |
Matthew D. Shair |
| Organization name |
Harvard University
|
| Department |
Chemistry and Chemical Biology
|
| Lab |
Shair
|
| Street address |
12 Oxford Street
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02138 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE65019 |
Effect in MV4;11 cells of 3hr cortistatin A treatment on gene expression |
| GSE65161 |
Mediator kinase inhibition further activates super-enhancer-associated genes in AML |
|
