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Sample GSM309489 Query DataSets for GSM309489
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

Data table header descriptions
ID_REF
VALUE RMA-normalized intensity

Data table
ID_REF VALUE
1415670_at 371.045759
1415671_at 522.0956248
1415672_at 1512.403449
1415673_at 402.764214
1415674_a_at 482.8906283
1415675_at 1127.629295
1415676_a_at 2407.87966
1415677_at 329.3964775
1415678_at 4274.365658
1415679_at 1362.148849
1415680_at 646.5460839
1415681_at 683.7513579
1415682_at 376.3417149
1415683_at 1225.959128
1415684_at 258.0801078
1415685_at 577.7129422
1415686_at 1445.794768
1415687_a_at 1928.608577
1415688_at 1268.624954
1415689_s_at 132.0183781

Total number of rows: 22690

Table truncated, full table size 521 Kbytes.




Supplementary file Size Download File type/resource
GSM309489.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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