|
| Status |
Public on Jun 28, 2021 |
| Title |
day3_mock1 |
| Sample type |
RNA |
| |
|
| Source name |
day3_mock1
|
| Organism |
Homo sapiens |
| Characteristics |
time post infection: Day 3 post infection
infection: Mock infection (control)
cell line: Huh7.5.1
|
| Treatment protocol |
DMSO-differentiated Huh7.5.1 cells were infected with HCV Jc1 clone.
|
| Growth protocol |
Huh7.5.1 cells were cultured in DMEM with 1% DMSO for 10 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s protocol.
|
| Label |
biotin
|
| Label protocol |
Refer to the Illumina beadarray Assay System Manual
|
| |
|
| Hybridization protocol |
Refer to the Illumina beadarray Assay System Manual
|
| Scan protocol |
Refer to the Illumina beadarray Assay System Manual
|
| Data processing |
For each probe, replicated mesurements (beads) were averaged after removing outliers by Genome Studio software v.3 (Illumina). Data were were then normalized using qubic spline algorithm implemented in GenePattern Illumina normalizer module (www.broadinstitute.org/genepattern) after setting a floor value of 1.
|
| |
|
| Submission date |
Mar 12, 2015 |
| Last update date |
Jun 28, 2021 |
| Contact name |
Yujin Hoshida |
| E-mail(s) |
Yujin.Hoshida@UTSouthwestern.edu
|
| Organization name |
University of Texas Southwestern Medical Center
|
| Street address |
5323 Harry Hines Blvd
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75390 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE66842 |
Gene expression profiles of differentiated Huh7.5.1 cells infected with HCV Jc1 clone |
| GSE66843 |
A cell-based model unravels drivers for hepatocarcinogenesis and targets for clinical chemoprevention |
|
