|
| Status |
Public on Apr 03, 2013 |
| Title |
MLL-AF6 leukemia Z236 BM Replicate 2 of 3 |
| Sample type |
RNA |
| |
|
| Source name |
Whole bone marrow cells from a retroviral mouse model of MLL-AF6
|
| Organism |
Mus musculus |
| Characteristics |
cell type: bone marrow leukemic cells
disease state: MLL-AF6 leukemia
|
| Treatment protocol |
Cells were not subject to any treatment prior to RNA preparation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA and Qiagen RNeasy micro kit was performed according to the manufacturer's instructions.
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 100 ng total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
According to manufacturer's instructions (Affymetrix)
|
| Scan protocol |
According to manufacturer's instructions (Affymetrix)
|
| Description |
Sacrificed terminally ill leukemic mouse
Gene expression data from a MLL-AF6 positive murine leukemic marrow
|
| Data processing |
RMA background correction and quantile normalization 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 20, 2012 |
| Last update date |
Apr 03, 2013 |
| 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 (2) |
| GSE43067 |
Expression data from MLL-AF6 positive leukemia cells |
| GSE43069 |
MLL-AF6 leukemia |
|
