|
| Status |
Public on Jun 28, 2021 |
| Title |
Huh7.5.1_HCV_untreated_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Huh7.5.1, HCV, untreated
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Huh7.5.1
cell type: DMSO-differentiated Huh7.5.1 cells (Huh7.5.1dif)
exposure with etiological agent: HCV Jc1 infection (TCID50/mL=10^6/mL)
duration with etiological agent: 10 days
intervention: None
duration of intervention: n.a.
|
| Treatment protocol |
DMSO-differentiated Huh7.5.1 cells (Huh7.5.1dif) were exposed to mock or HCV Jc1 clone, then treated with various drugs to measure modulation of Prognostic Liver Signature genes.
|
| Growth protocol |
DMSO-differentiated Huh7.5.1 cells (Huh7.5.1dif) were cultured in DMEM with 1% DMSO for 10 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were washed with PBS and lysed with 5 µl of iScript™ RT-qPCR Sample Preparation Reagent (Bio-rad, Hercules, California).
|
| Label |
biotin
|
| Label protocol |
Refer to the NanoString nCounter Assay System Manual.
|
| |
|
| Hybridization protocol |
Refer to the NanoString nCounter Assay System Manual.
|
| Scan protocol |
Refer to the NanoString nCounter Assay System Manual.
|
| Description |
HCVnonTTT-1
|
| Data processing |
For each probe, transcript count data were log2 transformed and scaled by geometric mean of the normalization genes by NanoString normalizer module of GenePattern toolkit (www.broadinstitute.org/genepattern) after setting a floor value of 1.1.
|
| |
|
| Submission date |
May 23, 2016 |
| 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 |
GPL19886 |
| Series (2) |
| GSE66843 |
A cell-based model unravels drivers for hepatocarcinogenesis and targets for clinical chemoprevention |
| GSE81801 |
Prognostic Liver Signature profiles of Jc1-infected Huh7.5.1dif cells treated with various drugs |
|
