|
| Status |
Public on May 06, 2006 |
| Title |
chondrocyte_5azatreated_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
primary chondrocytes treated
|
| Organism |
Mus musculus |
| Characteristics |
strain: B6; gender: mix; age: 0-2d; tissue: rib cartilage; passage #: 4; treatment: 5-aza-2'-deoxycytidine; biological replicate: 1
|
| Treatment protocol |
Freshly prepared 5A2dC (Sigma; Saint Louis, MO, USA) stock solution was diluted in growth medium to a concentration of 5 μM. A new preparation of the drug in growth medium was added every 24 hours for a total of 72-hour drug exposure. Cells were grown in normal medium following treatment for an additional 24 hours.
|
| Growth protocol |
Cultures were maintained in DMEM with L-glutamine and high glucose (Invitrogen) plus 10% heat-inactivated FBS (Invitrogen) and 100 U/mL penicillin streptomycin (Invitrogen) at 37 oC and 5% CO2. Cells were passaged at confluence by 0.25% trypsin EDTA (Invitrogen).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNeasy total RNA extraction protocol (Qiagen)
|
| Label |
biotin labeled with standard Affymetrix fluorescent stain cocktail
|
| Label protocol |
standard Affymetrix IVT labeling and staining protocols
|
| |
|
| Hybridization protocol |
standard Affymetrix hybridization protocol
|
| Scan protocol |
standard Affymetrix scan protocol
|
| Description |
treated with 5-aza-2'-deoxycytidine for 72 hours plus 24 hours in normal medium; biological replicate 1
|
| Data processing |
MAS 5.0 data processing and normalization
|
| |
|
| Submission date |
May 03, 2006 |
| Last update date |
May 05, 2006 |
| Contact name |
Tammy Vallender |
| E-mail(s) |
[email protected]
|
| Phone |
7738344065
|
| Organization name |
University of Chicago
|
| Department |
Human Genetics
|
| Lab |
Dr. Bruce Lahn
|
| Street address |
929 E 57th St W503V
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60637 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE4768 |
Global analysis of transcriptional changes following genomic demethylation in chondrocytes, osteoblasts, and fibroblasts |
|
