|
| Status |
Public on Aug 01, 2006 |
| Title |
HepG2_5-aza_TSA_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
HepG2 cells; (HB-8065; ATCC, Manassas, VA)
|
| Organism |
Homo sapiens |
| Characteristics |
HepG2 cells treated with 5-aza-dC plus Trichostatin A
|
| Treatment protocol |
HepG2 cells treated with 2.5 microMolar 5-aza-dC for 4 days, with medium replaced daily; Trichostatin A at 500 nM was added for the last 24 h
|
| Growth protocol |
Cell Culture, 100 mm dishes, minimum essential medium (Sigma) plus 10% fetal bovine serum (Life Technologies, Rockville, MD) and 2 mM glutamine in a 5% CO2 atmosphere.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNeasy® Mini Kit, according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 microg total RNA (Expression Analysis Technical Manual, 2004, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 microg of cRNA were mixed with spike controls and 2/3 was hybridized for 17 hr at 45C on GeneChip Human Genome 133 plus 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station per manufacturer's instructions.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
|
| Description |
Gene expression data 5-aza-dC plus Trichostatin A treated HepG2 cells.
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 1000.
|
| |
|
| Submission date |
Jul 05, 2006 |
| Last update date |
Jul 05, 2006 |
| Contact name |
Howard Edenberg |
| E-mail(s) |
edenberg@iupui.edu
|
| Phone |
317 274-2353
|
| Organization name |
Indiana University School of Medicine
|
| Street address |
|
| City |
Indianapolis |
| State/province |
IN |
| ZIP/Postal code |
46202 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE5230 |
Epigenetics of gene expression in human hepatoma cells |
|
