|
| Status |
Public on Apr 11, 2012 |
| Title |
M5616-liver-Chronic, 461116_A01 |
| Sample type |
RNA |
| |
|
| Source name |
Woodchuck liver, chronic
|
| Organism |
Marmota monax |
| Characteristics |
tissue: liver
whv infection status: chronic
sample identifier: M5616
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from woodchuck liver tissues using the QIAamp RNA Blood Mini Kit (Qiagen Inc., Valencia, CA).
|
| Label |
Cy3
|
| Label protocol |
10 μg of total RNA was reverse-transcribed using the SuperScript double-stranded cDNA synthesis kit (Invitrogen, Inc., Calsbad, CA). After precipitation, double-stranded cDNA was labelled with Cy3 by using the Roche NimbleGen One-color DNA Labelling Kit (Roche NimbleGen, Inc., Madison, WI).
|
| |
|
| Hybridization protocol |
Woodchuck Gene Expression HX3 Microarrays were hybridized with 6.7 μg Cy3-labelled cDNA for 16-20 hours at 42ºC and were washed and dried according to the manufacturer’s instructions.
|
| Scan protocol |
Microarrays were scanned using a Roche NimbleGen MS200 Microarray Scanner at 2 μm pixel resolution. Features were extracted using NimbleScan Software.
|
| Description |
461116_A01
mRNA
|
| Data processing |
The gene expression data was normalized by the Robust Multichip Average (RMA) algorithm implemented in Partek Genomics Suite 6.5 (Partek, St. Louis MO).
|
| |
|
| Submission date |
Mar 15, 2012 |
| Last update date |
Apr 11, 2012 |
| Contact name |
Donavan Cheng |
| E-mail(s) |
donavan.cheng@gmail.com
|
| Organization name |
Hoffmann-LaRoche
|
| Department |
Translational Research Sciences
|
| Street address |
340 Kingsland Ave
|
| City |
Nutley |
| State/province |
NJ |
| ZIP/Postal code |
07110 |
| Country |
USA |
| |
|
| Platform ID |
GPL15354 |
| Series (2) |
| GSE36250 |
Transcriptomic analysis of the woodchuck model of chronic hepatitis B |
| GSE36533 |
Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Liver gene expression in uninfected, resolved and chronically infected woodchucks |
|
