|
| Status |
Public on Jun 15, 2012 |
| Title |
liver-HCV-Non Tumor-rep7 |
| Sample type |
RNA |
| |
|
| Source name |
liver-HCV-Non Tumor
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: liver
tissue type: Non Tumor
|
| Growth protocol |
The study was approved by the Institutional Review Board at Washington University in St. Louis and all patients were enrolled after informed consent.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Liver biopsy that were snap frozen obtained from HCV or control normal liver, were used to isolate RNA using Trizol reagent (Invitrogen, Carlsbad, CA) as per manufacturer’s protocol.
|
| Label |
biotin
|
| Label protocol |
RNA samples were labeled with biotin according to Manufacturer's instructions.
|
| |
|
| Hybridization protocol |
750ng of each aRNA in water (10ul) was suspended in Illumina “HYB” buffer (20ul) and heated to 65C for five minutes, then allowed to cool to room temperature. The samples were applied to HumanHT12v3 Expression Beadchips and hybridized at 58C for 16-20 hours at high humidity. Arrays were washed according to Illumina standard protocol. Immobilized, biotinylated aRNAs were then detected by staining with cy3 Steptavidin (1ug cy3-SA per 1 ml of Illumina “Block E1”) for 10 minutes at room temperature. Arrays were washed and dried according to Illumina standard protocol.
|
| Scan protocol |
Arrays were scanned on an Illumina BeadArray Reader. Laser power and PMT voltage were kept constant for Cy3 scans. Images were quantitated by Illumina Beadscan, v3. Quantitated data was imported into Beadstudio software. On-slide spot replicates were averaged by Beadstudio and individual spot data was reported
|
| Description |
270_ 28N
|
| Data processing |
The data were normalized using quantile normalization implemented in Illumina Genome studio version 1.7.0.
|
| |
|
| Submission date |
May 24, 2012 |
| Last update date |
Jul 05, 2012 |
| Contact name |
Nobish Varghese |
| E-mail(s) |
nvarghese@path.wustl.edu
|
| Organization name |
Washington University in St.Louis
|
| Street address |
4444 Forest Park Ave.
|
| City |
StLouis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL6947 |
| Series (1) |
| GSE38226 |
MicroRNA profiling in TGFβ signaling and development of fibrosis. |
|
