NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM838434 Query DataSets for GSM838434
Status Public on Nov 24, 2011
Title M9ENL1, triplicate 1
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
ID_REF
VALUE log2 transformed intensity value

Data table
ID_REF VALUE
1007_s_at 6.466499027
1053_at 8.950980618
117_at 6.050733964
121_at 8.053471142
1255_g_at 4.416075302
1294_at 7.276033726
1316_at 5.520180604
1320_at 5.066821604
1405_i_at 7.757334619
1431_at 4.685708407
1438_at 6.106460546
1487_at 8.109262366
1494_f_at 6.091912913
1598_g_at 7.760392593
160020_at 7.269719347
1729_at 7.371751049
177_at 6.307750869
1773_at 6.499114102
179_at 8.55244164
1861_at 6.925018388

Total number of rows: 22277

Table truncated, full table size 496 Kbytes.




Supplementary file Size Download File type/resource
GSM838434_S.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