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Sample GSM309484 Query DataSets for GSM309484
Status Public on Nov 04, 2008
Title ALL#116
Sample type RNA
 
Source name B220+ CD43- IgM- IgD-
Organism Mus musculus
Characteristics cell type: leukemic preB
Mll-AF4stop knock-in mice
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 cells from Mll-AF4stop knock-in mouse bone 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 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

Data table header descriptions
ID_REF
VALUE RMA-normalized intensity

Data table
ID_REF VALUE
1415670_at 528.4121777
1415671_at 542.9998253
1415672_at 1203.453388
1415673_at 112.1726796
1415674_a_at 563.558811
1415675_at 860.319681
1415676_a_at 2950.686024
1415677_at 269.5530064
1415678_at 3570.200829
1415679_at 1717.816245
1415680_at 601.6136619
1415681_at 838.0318269
1415682_at 660.8630521
1415683_at 1244.117086
1415684_at 343.5343173
1415685_at 440.313763
1415686_at 1674.931402
1415687_a_at 699.954843
1415688_at 1922.916093
1415689_s_at 139.8628609

Total number of rows: 22690

Table truncated, full table size 521 Kbytes.




Supplementary file Size Download File type/resource
GSM309484.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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