|
Status |
Public on Aug 07, 2012 |
Title |
liver tumor 8 |
Sample type |
RNA |
|
|
Channel 1 |
Source name |
HCC in miR-122 KO male mice
|
Organism |
Mus musculus |
Characteristics |
tissue: HCC liver tumor genotype: miR-122 KO genetic background: C57BL/6J and 129S/Svj mixed
|
Growth protocol |
Liver tumors from miR-122 knockout mice and livers from age-matched WT mice
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted using miRVana kit (Invitrogen) followed by further purification using RNeasy kit (Aquagen).
|
Label |
Cy5
|
Label protocol |
Two-Color Microarray-Based Gene Expression Analysis Low Input Quick Amp Labeling Version 6.5, May 2010
|
|
|
Channel 2 |
Source name |
miR-122 floxed male mouse
|
Organism |
Mus musculus |
Characteristics |
tissue: liver genotype: miR-122 floxed genetic background: C57BL/6J and 129S/Svj mixed
|
Growth protocol |
Liver tumors from miR-122 knockout mice and livers from age-matched WT mice
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted using miRVana kit (Invitrogen) followed by further purification using RNeasy kit (Aquagen).
|
Label |
Cy3
|
Label protocol |
Two-Color Microarray-Based Gene Expression Analysis Low Input Quick Amp Labeling Version 6.5, May 2010
|
|
|
|
Hybridization protocol |
Arrays were hybridized for 17 hours at 65 degrees Celsius.
|
Scan protocol |
Scanned with Agilent G2505C Microarray Scanner using the AgilentG3_GX_2Color protocol
|
Description |
Biological Replicate 8
|
Data processing |
The information about each probe on the array was extracted from the image data using Agilent Feature Extraction 10.9 (FE). This data is stored in the FE “.txt” files. The raw intensity values from these files is imported into the mathematical software package “R”, which is used for all data input, diagnostic plots, normalization and quality checking steps of the analysis process using scripts developed in-house by Peter White specifically for this analysis.
|
|
|
Submission date |
Aug 29, 2011 |
Last update date |
Aug 07, 2012 |
Contact name |
kalpana ghoshal |
E-mail(s) |
kalpana.ghoshal@osumc.edu
|
Phone |
614-292-8865
|
Fax |
614-688-5600
|
Organization name |
The Ohio State University
|
Department |
Molecular and Cellular Biochemistry
|
Street address |
420 W. 12th Avenue
|
City |
Columbus |
State/province |
OH |
ZIP/Postal code |
43210 |
Country |
USA |
|
|
Platform ID |
GPL13912 |
Series (1) |
GSE31731 |
Gene expression profile of HCCs developed in miR-122 knockout mice compared to age-matched wild type mice |
|