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Sample GSM838431 Query DataSets for GSM838431
Status Public on Nov 24, 2011
Title HL60, replicate B2
Sample type RNA
Source name HL60 AML cells
Organism Homo sapiens
Characteristics cell line: HL-60
treatment: DMSO
leukemia type: promyelocytic AML
Treatment protocol Cells were treated with DMSO
Growth protocol Cells were cultured in RPMI-1640 supplemented with 10% fetal bovine serum
Extracted molecule total RNA
Extraction protocol Total RNA was harvested using the RNeasy Mini Kit from Qiagen
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
Reanalysis of GSM697693

Data table header descriptions
VALUE log2 transformed intensity value

Data table
1007_s_at 6.113077062
1053_at 8.836716493
117_at 6.083887999
121_at 7.985760409
1255_g_at 4.257587622
1294_at 7.134801383
1316_at 5.503489227
1320_at 4.940483553
1405_i_at 7.877832417
1431_at 4.634591933
1438_at 5.776214857
1487_at 7.975055128
1494_f_at 6.004398929
1598_g_at 7.589076686
160020_at 6.737429496
1729_at 7.291691344
177_at 5.7669715
1773_at 6.562810562
179_at 8.33361492
1861_at 6.858798216

Total number of rows: 22277

Table truncated, full table size 496 Kbytes.

Supplementary file Size Download File type/resource
GSM838431_GSM697693.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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