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Sample GSM1240945 Query DataSets for GSM1240945
Status Public on Dec 31, 2016
Title Human Mammary Epithelial Cells_GFP_Transfected_4
Sample type RNA
 
Source name HMECs_GFP_Transfected
Organism Homo sapiens
Characteristics cell type: Human Mammary Epithelial cells (HMECs)
genotype/variation: over-expressing GFP (control)
Treatment protocol Cells were brought to quisecence by serum starvation and treated with adenovirus to over-express the Rheb oncogene (10 replicates) or GFP (10 replicates). Eighteen hours after infection, activation of oncogenes and secondary targets were confirmed by western blotting.
Growth protocol Mammary epithelial cells were isolated from a breast reductive surgery at Duke University and grown at 37 degrees C in mammary epithelial cell growth medium (MEGM) containing a MEGM Bullet Kit, human transferrin and isopenterol.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using a Qiagen Rneasy kit.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3-4 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol The resulting biotin-labeled RNA samples were then hybridized with Affymetrix U133A 2.0 GeneChip arrays according to the manufacturer's instructions (Affymetrix, Santa Clara, CA).
Scan protocol GeneChips were scanned using the Gene Array Scanner (Affymetrix) following the manufacturer’s instructions (Affymetrix, Santa Clara, CA).
Description 35215_GFP4
Data processing The data were analyzed using the R statistical platform with the Bioconductor affymetrix package [R version 2.13.1 (2011-07-08) and Bioconductor version 2.9].
 
Submission date Sep 27, 2013
Last update date Dec 31, 2016
Contact name David Hsu
Organization name Duke University
Department Medical Oncology
Street address 905 S. LaSalle St. Rm 3008
City Durham
State/province NC
ZIP/Postal code 27710
Country USA
 
Platform ID GPL571
Series (2)
GSE51242 A Molecular Profile of Colorectal Cancer to Guide Therapy [HMEC]
GSE51244 A Molecular Profile of Colorectal Cancer to Guide Therapy

Data table header descriptions
ID_REF
VALUE Log2 GC-RMA signal.

Data table
ID_REF VALUE
1007_s_at 11.7133693
1053_at 6.676580146
117_at 9.102251539
121_at 7.469081048
1255_g_at 3.642462958
1294_at 6.868550117
1316_at 6.418079387
1320_at 5.770803608
1405_i_at 4.792970348
1431_at 4.058474094
1438_at 7.783290144
1487_at 8.318797
1494_f_at 5.097565458
1598_g_at 11.2712032
160020_at 11.08133215
1729_at 8.703196318
177_at 6.378726052
1773_at 6.59187625
179_at 9.384048247
1861_at 7.134638302

Total number of rows: 22277

Table truncated, full table size 496 Kbytes.




Supplementary file Size Download File type/resource
GSM1240945_2857_8676_35215_GFP4_HG-U133A+2.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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