GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM838436 Query DataSets for GSM838436
Status Public on Nov 24, 2011
Title M9ENL1, triplicate 3
Sample type RNA
Source name M9-ENL1 cells
Organism Homo sapiens
Characteristics cell line: M9-ENL1
treatment: DMSO
leukemia type: pre B-ALL
Treatment protocol Cells were treated with DMSO
Growth protocol TEX cells were maintained in IMDM, 15% FBS, 2 mM L-glutamine, 1% Pen/Strep, 20 ng/mL SCF, 2 ng/mL IL3. M9-ENL1 cells were maintained in MEM, 20% FBS, 5% human adult plasma, 2mM L-glutamine, 1% Pen/Strep, 100 ng/mL SCF, 10 ng/mL IL3, 5 ng/mL IL7, 5 ng/mL FLT3-ligand.
Extracted molecule total RNA
Extraction protocol TriZol extraction of total RNA was performed according to the manufacturer's instructions.
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Hybridization protocol The cDNA was fragmented, labeled and hybridized to Affymetrix U133A microarrays (Affymetrix, Santa Clara, CA)
Scan protocol standard Affymetrix protocol
Data processing The data was processed using Bioconductor (affy package 1.30.0) by reading CEL files with default 'ReadAffy()' function. Data was background corrected with RMA, normalized by quantiles method, PM only correction, and then median polished. To account for batch variation, the log2 values were adjusted using ComBat (version 2) in GenePattern with a parametric Empirical Bayes priors distribution estimation method and without covariate analysis.
Submission date Nov 22, 2011
Last update date Nov 28, 2011
Contact name Kolja Eppert
Organization name University Health Network
Street address 101 College St., rm 8-301
City Toronto
State/province Ontario
ZIP/Postal code M5G 1L7
Country Canada
Platform ID GPL571
Series (1)
GSE33892 Comparison of TEX and M9-ENL1 cell lines to HL60 and THP1 cell lines

Data table header descriptions
VALUE log2 transformed intensity value

Data table
1007_s_at 6.550461821
1053_at 9.011919762
117_at 5.922577642
121_at 8.025470598
1255_g_at 4.191388647
1294_at 7.278560966
1316_at 5.423176103
1320_at 5.007998506
1405_i_at 7.691096366
1431_at 4.559466485
1438_at 5.836852488
1487_at 8.113439896
1494_f_at 6.051220522
1598_g_at 7.642277022
160020_at 6.964737235
1729_at 7.429762194
177_at 6.391207168
1773_at 6.440179123
179_at 8.324799711
1861_at 7.055795588

Total number of rows: 22277

Table truncated, full table size 496 Kbytes.

Supplementary file Size Download File type/resource
GSM838436_U.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap