|
| Status |
Public on Jan 23, 2011 |
| Title |
HFD_C3H/HeJ_6 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
liver sample from C3H/HeJ, HFD
|
| Organism |
Mus musculus |
| Characteristics |
strain: 129S1SvImJ
tissue: liver
diet: high fat diet
|
| Treatment protocol |
A high-fat diet or EtOH-containing high-fat diet was administered via gastric tube for 28 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using an RNeasy plus mini kit (Qiagen, Valencia, CA).
|
| Label |
Cy5
|
| Label protocol |
2.0 ug of total RNA from each sample, or 2.5 ug from mouse reference RNA (Icoria, Inc., RTP, NC), was labeled with fluorescent dye (Cy5 and Cy3, respectively).
|
| |
|
| Channel 2 |
| Source name |
mouse liver RNA (reference)
|
| Organism |
Mus musculus |
| Characteristics |
tissue: liver
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using an RNeasy plus mini kit (Qiagen, Valencia, CA).
|
| Label |
Cy3
|
| Label protocol |
2.0 ug of total RNA from each sample, or 2.5 ug from mouse reference RNA (Icoria, Inc., RTP, NC), was labeled with fluorescent dye (Cy5 and Cy3, respectively).
|
| |
|
| |
| Hybridization protocol |
Labeled samples and reference were hybridized to the microarray at 65 degrees for 17 hours and washed with washing solutions.
|
| Scan protocol |
Arrays were scanned with Agilent Microarray Scanner (Agilent), and the obtained images were analyzed with Agilent Feature Extraction software (v8.5, Agilent Technologies).
|
| Description |
Batch2
6
|
| Data processing |
Normalization and filtering were performed with UNC Microarray Database (https://genome.unc.edu/). Inter-batch normalization was carried out using the ComBat procedure.
|
| |
|
| Submission date |
Jan 26, 2010 |
| Last update date |
Jan 23, 2011 |
| Contact name |
Ivan Rusyn |
| E-mail(s) |
iir@unc.edu
|
| Phone |
919-843-2596
|
| Fax |
919-843-2596
|
| URL |
http://cancer.unc.edu/research/faculty/displayMember.asp?ID=398
|
| Organization name |
University of North Carolina
|
| Department |
Gillings School of Global Public Health
|
| Lab |
Environmental Genomics Lab
|
| Street address |
0031 Michael Hooker Research Center
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599-7431 |
| Country |
USA |
| |
|
| Platform ID |
GPL7202 |
| Series (1) |
| GSE20052 |
Gene expression in the liver of ethanol-treated mice via gastric tube in multiple strains |
|
