|
| Status |
Public on Aug 22, 2014 |
| Title |
MGHc002 |
| Sample type |
RNA |
| |
|
| Source name |
MGHc002
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: hepatitis C virus (HCV)-related liver cirrhosis
tissue: liver
prognostic prediction: Poor
|
| Treatment protocol |
FFPE tissue sections (10 micron-thick) sliced from FFPE blocks
|
| Growth protocol |
na
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated with High Pure RNA paraffin kit (Roche) according to manufacturer’s protocol.
|
| 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
|
| 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 |
Jan 15, 2014 |
| Last update date |
Aug 22, 2014 |
| Contact name |
Yujin Hoshida |
| 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 |
GPL17230 |
| Series (2) |
| GSE54100 |
Expression profiles of 186-gene signature in U.S. hepatitis C virus (HCV)-related liver cirrhosis |
| GSE54102 |
A genomic and clinical prognostic index for hepatitis C-related early-stage cirrhosis that predicts clinical deterioration |
|
