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Sample GSM673050 Query DataSets for GSM673050
Status Public on Feb 15, 2011
Title OCI-Ly1 combination 48h
Sample type RNA
 
Source name DLBCL patient
Organism Homo sapiens
Characteristics cell type: Diffuse large B-cell lymphoma
cell line: OCI-Ly1
agent: decitabine and panobinostat
Treatment protocol Cells were treated with panobinostat alone, decitabine alone or their combination. Following 48h of incubation with the drugs total RNA was isolated.
Growth protocol cells were grown in IMDM (Ly1 and Ly10) or RPMI (Su-DHL6) medium with 10% fetal bovine serum. Fresh medium was added every 2-3 days and the cells were kept at a cell concentration of 0.5-1 x 106/mL.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TRIZOL reagens
Label biotin
Label protocol standard Illumina protocol
 
Hybridization protocol standard Illumina protocol
Scan protocol standard Illumina protocol
Data processing Expression intensity measures went through background correction, log2 transformation, and quantile normalization methods executed by BeadStudio 3.2. software. Unsupervised clustering of gene expression data by principal component analysis was performed with the use of GenePattern software
 
Submission date Feb 10, 2011
Last update date Feb 15, 2011
Contact name Matko Kalac
E-mail(s) matko.kalac@nyumc.org
Phone 212 263 9124
Organization name NYU Medical Center
Department NYU Cancer Institute
Lab O'Connor-Smilow 1207
Street address 522 1st Avenue
City New York
State/province NY
ZIP/Postal code 10016
Country USA
 
Platform ID GPL6947
Series (1)
GSE27226 HDACI and DAC induce specific epigenetic profile in DLBCL

Data table header descriptions
ID_REF
VALUE quantile normalized data
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1762337 0.3227932 0.3926219
ILMN_2055271 9.060991 0.1198946
ILMN_1736007 -7.074865 0.7878788
ILMN_2383229 -2.470192 0.5559947
ILMN_1806310 -0.0970169 0.4071146
ILMN_1779670 -3.6555 0.6218709
ILMN_2321282 -11.13679 0.9341239
ILMN_1671474 -9.444154 0.8814229
ILMN_1772582 13.84962 0.07114624
ILMN_1735698 -5.190373 0.6943346
ILMN_1653355 16.03373 0.05006588
ILMN_1717783 -5.645705 0.7088274
ILMN_1705025 -3.14798 0.5928854
ILMN_1814316 -10.06774 0.9038208
ILMN_2359168 0.6467417 0.3794466
ILMN_1731507 -3.844533 0.6310936
ILMN_1787689 6.502264 0.1752306
ILMN_1745607 -2.208665 0.5401844
ILMN_2136495 1.486763 0.3530962
ILMN_1668111 -1.104115 0.4637681

Total number of rows: 48790

Table truncated, full table size 1477 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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