|
| Status |
Public on Feb 14, 2017 |
| Title |
mms_8hr_4 |
| Sample type |
RNA |
| |
|
| Source name |
primary MEFs
|
| Organism |
Mus musculus |
| Characteristics |
tissue: mouse embryonic fibroblasts
strain: C57BL6/J
treatment: mms
time period: 8hr
replicate: 4
|
| Treatment protocol |
MMS exposure was 40 µg/mL final concentration in fresh medium.
|
| Growth protocol |
Primary MEFs were harvested from day 15.5 embryos of pregnant C57BL6/J female mice, plated (passage 0), expanded for 2 passages, growing cells in DMEM supplemented with 10% inactivated FBS plus antibiotics in a 37°C humidified incubator at 5% O2 and 95% CO2 atmosphere. Cells were kept and treated in the exponential phase of growing (60-70% confluence).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using the RNeasy protocol (Qiagen) and the purity of prepared RNA was determined using Agilent 2100 BioAnalyzer.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 µg of cRNA were hybridized for 16 hr at 45ºC on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix fluidics station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GC300 scanner 7G.
|
| Description |
MMS 8hr-4
|
| Data processing |
Data was generated by using the robust multi-array average (RMA) expression measure implemented in R, directly processed from CEL files
|
| |
|
| Submission date |
May 19, 2014 |
| Last update date |
Jun 27, 2018 |
| Contact name |
Yidong Chen |
| E-mail(s) |
cheny8@uthscsa.edu
|
| Phone |
2105629163
|
| Organization name |
UT Health Science Center at San Antonio
|
| Department |
Population Health Sciences
|
| Street address |
8403 Floyd Curl Drive, MSC 7784
|
| City |
San Antonio |
| State/province |
Texas |
| ZIP/Postal code |
78229 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (2) |
| GSE57789 |
MMS induced expression changes (Mouse) |
| GSE57801 |
MMS induced expression changes |
|
