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Sample GSM606116 Query DataSets for GSM606116
Status Public on Jan 10, 2011
Title siERK2E24h_2662
Sample type RNA
Source name MCF-7 cells, siERK2 treatment 60h, 10 nM E2 for 4h
Organism Homo sapiens
Characteristics disease state: Breast adenocarcinoma
cell line: MCF-7
sirna: siERK2
agent: E2
time: 4h
Treatment protocol MCF-7 human breast cancer cells were transfected with 20 nM of siGENOME ctrl (siGL3),ERK1 or ERK2 (Thermo Scientific) using Dharmafect1 following the manufacturer’s instructions. After 60 h of transfection, cells were treated with 0.1% control ethanol vehicle or 10 nM E2 for 4h or 24h
Growth protocol MCF-7 cells were maintained in MEM media with 5% Calf serum
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 from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix [HG-U133A_2] Affymetrix Human Genome U133A 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner GCS 3000.
Description 2662_E_10_(HG-U133A_2).CEL
Gene expression data from MCF-7 cells, siERK2 treatment 60h, 10 nM E2 for 4h
Data processing The data were analyzed with GCOS2.1 using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Submission date Oct 08, 2010
Last update date Jan 10, 2011
Contact name Zeynep Madak Erdogan
Organization name UIUC
Department FSHN
Lab Zeynep Madak Erdogan
Street address 1201 S Goodwin Ave
City Urbana
State/province IL
ZIP/Postal code 61801
Country USA
Platform ID GPL571
Series (1)
GSE24592 Genomic Collaboration of Estrogen Receptor-α and ERK2 in Regulating Gene and Proliferation Programs

Data table header descriptions
VALUE GCOS2.1 signal intensity

Data table
1007_s_at 11.84993497
1053_at 9.4660847
117_at 2.161561317
121_at 4.769528622
1255_g_at 2.140685975
1294_at 2.606641549
1316_at 2.142764899
1320_at 2.140685975
1405_i_at 2.170189381
1431_at 2.140685975
1438_at 5.209062478
1487_at 9.076282096
1494_f_at 2.140685975
1598_g_at 2.374470609
160020_at 2.143256379
1729_at 7.765228915
177_at 2.141031752
1773_at 4.887466582
179_at 2.35595602
1861_at 7.539894973

Total number of rows: 22277

Table truncated, full table size 497 Kbytes.

Supplementary file Size Download File type/resource
GSM606116.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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