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Sample GSM1528453 Query DataSets for GSM1528453
Status Public on Mar 31, 2015
Title 50_20h_BV6
Sample type RNA
Source name mononuclear cells from peripheral blood
Organism Homo sapiens
Characteristics age (years): 70
gender: m
sample source: PB
karyotype: 13q-
igvh status: unmutated
tp53 mutation: WT
treatment time: 20h
treatment: BV6
Treatment protocol Primary CLL samples were cultivated using RPMI 1640 (Biochrom AG, Berlin, Germany), supplemented with 10% FCS (Sigma-Aldrich, St. Louis, MO, USA), 2 mM L-Glutamin (Biochrom AG), and Penicillin/Streptomycin (GIBCO, Invitrogen Corporation, Grand Island, NY, USA). Prior to treatment, cells were stained with trypan blue (Sigma-Aldrich), counted, and diluted to a density of 1.0x106 cells/ml. Thawing of viably frozen samples followed the DSMZ (German Collection of microorganisms and cell lines, Braunschweig) guideline. Agents used to treat primary AML sample for 4 and 20 hours in vitro were DMSO (control/carrier; dimethyl sulfoxide; Sigma-Aldrich), and BV6 was synthesized at Genentech, Inc. (South San Francisco, CA, USA).
Extracted molecule total RNA
Extraction protocol The total RNA was purified with a TRIzol-based protocol.
Label Biotin
Label protocol For each sample preparation, total RNA was converted into double-stranded cDNA by reverse transcription using the 3' IVT Express Kit from Affymetrix according to the manufacturer's recommendations.
Hybridization protocol Hybridization, washing, and staining protocols, respectively, were performed on Affymetrix GeneChip instruments (Hybridization Oven 640, Fluidics Station FS450) as recommended by the manufacturer.
Scan protocol Scanning was performed on Affymetrix GeneChip Scanner GCS3000 instruments as recommended by the manufacturer using default settings. The software used was GCOS 1.2 or higher.
Description 50_20h_BV6
Data processing The data were analyzed with BRB ArrayTools using RMA. Intensity values were log2 transformed
Submission date Oct 20, 2014
Last update date Mar 31, 2015
Contact name Lars Bullinger
Phone +49-30-450-553111
Organization name Charité
Department Hematology, Oncology and Tumorimmunology
Street address Augustenburger Platz 1
City Berlin
ZIP/Postal code 13353
Country Germany
Platform ID GPL570
Series (1)
GSE62533 Inhibitor of apoptosis proteins as promising therapeutic targets in chronic lymphocytic leukemia

Data table header descriptions
VALUE RMA normalized data, log2 transformed

Data table
1007_s_at 9.488274574
1053_at 8.040280342
117_at 5.539796829
121_at 7.861558914
1255_g_at 3.182046175
1294_at 7.632449627
1316_at 7.218778133
1320_at 4.682179928
1405_i_at 6.522664547
1431_at 4.911295414
1438_at 5.617449284
1487_at 8.172047615
1494_f_at 6.166289806
1552256_a_at 6.208913803
1552257_a_at 7.539726257
1552258_at 5.522026062
1552261_at 4.372819901
1552263_at 8.558677673
1552264_a_at 8.891043663
1552266_at 2.812196493

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.

Supplementary file Size Download File type/resource
GSM1528453_W_20h_BV6.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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