|
Status |
Public on Nov 04, 2008 |
Title |
ALL#A992 |
Sample type |
RNA |
|
|
Source name |
B220+ CD43- IgM- IgD-
|
Organism |
Mus musculus |
Characteristics |
cell type: leukemic preB Mll-AF4stop x Mx1Cre
|
Extracted molecule |
total RNA |
Extraction protocol |
Trizol extraction following manufacturer's protocol.
|
Label |
Biotin
|
Label protocol |
20 nanograms of total RNA was amplified and processed to produce biotinylated cDNA targets using the NuGen Ovation Biotin labeling system.
|
|
|
Hybridization protocol |
3.75 micrograms of biotinylated material was hybridized according to the standard Affymetrix protocol.
|
Scan protocol |
Standard Affymetrix protocol
|
Description |
purified pre B-lymphocytes (B220+ CD43- IgM- IgD-) from bone marrow of a mouse leukemic after pIpC treatment
|
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 |
Jul 31, 2008 |
Last update date |
Mar 18, 2009 |
Contact name |
Madeleine E. Lemieux |
E-mail(s) |
mlemieux@bioinfo.ca
|
Phone |
617-595-6695
|
URL |
http://www.bioinfo.ca
|
Organization name |
Bioinfo
|
Street address |
275 Main St., Suite 252
|
City |
Plantagenet |
State/province |
ON |
ZIP/Postal code |
K0B 1L0 |
Country |
Canada |
|
|
Platform ID |
GPL8321 |
Series (2) |
GSE12310 |
Expression profiling of normal murine lymphoid progenitors and MLL-AF4 leukemic lymphoblasts |
GSE12363 |
H3K79 methylation profiles define murine and human MLL-AF4 leukemias |
|