|
| Status |
Public on Sep 13, 2011 |
| Title |
MIY_day_3-2 |
| Sample type |
RNA |
| |
|
| Source name |
Dot1l flox/flox day 3 after transduction with control
|
| Organism |
Mus musculus |
| Characteristics |
strain: B6129
cell type: MLL-AF9 leukemia cells
genotype: Dot1l flox/flox
days after transduction: 3
|
| Treatment protocol |
Sorted GFP-positive Dot1l flox/flox MLL-AF9 leukemia cells were transduced with retroviral Cre-YFP or YFP control vector. GFP/YFP positive cells were sorted on days 3, 5, and 7.
|
| Growth protocol |
Leukemias were generated by injecting 100 000 MLL-AF9-GFP transduced Dot1l flox/flox 4 days after transduction into B6129 recipients. Bulk leukemia cells were isolated from leukemic mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol. RNA was prepared using the Nugen Ovation Pico WTA system.
|
| Label |
Biotin
|
| Label protocol |
Amplified cDNA was labeled using the Nugene Encore TM Biotin Module.
|
| |
|
| Hybridization protocol |
5 μg of labeled cDNA was hybridized to the Affymetrix 430 2.0 microarray using standard conditions.
|
| Scan protocol |
GeneChip Scanner 3000, 7G. Standard Affymetrix protocol.
|
| Description |
Loss of Dot1l in MLL-AF9 murine leukemia.
|
| Data processing |
RMA background correction and quantile normalization was done with the GenePattern ExpressionFileCreator module (http://www.broad.mit.edu/cancer/software/genepattern/), which uses the Bioconductor implementation of RMA (http://www.bioconductor.org/). This function computes the Robust Multichip Average expression measure described in Irizarry et al. Biostatistics (2003).
|
| |
|
| Submission date |
Dec 07, 2010 |
| Last update date |
Sep 13, 2011 |
| Contact name |
Amit Sinha |
| E-mail(s) |
amit.sinha@childrens.harvard.edu
|
| Phone |
617-582-7579
|
| Organization name |
Dana-Farber Cancer Institute
|
| Department |
Pediatric Oncology
|
| Lab |
Armstrong Lab
|
| Street address |
44 Binney St
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02135 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE25911 |
Expression changes after loss of Dot1l in murine MLL-AF9 leukemia cells |
|
