|
| Status |
Public on Dec 31, 2013 |
| Title |
DTM with high core vs STM replicate 1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
DTM(High)
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Liver
gender: female
inflammation: no
steastosis: yes
strain: FVB/N
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted by Trizol® Reagent (Invitrogen, USA), and followed by RNeasy Mini Kit (Qiagen, Germany).
|
| Label |
Cy5
|
| Label protocol |
0.5 μg of total RNA was amplified by a Fluorescent Linear Amplification Kit (Agilent Technologies, USA) and labeled with Cy3-CTP or Cy5-CTP (CyDye, PerkinElmer, USA) during the in vitro transcription process.
|
| |
|
| Channel 2 |
| Source name |
STM
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Liver
gender: female
inflammation: no
stestosis: no
strain: FVB/N
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted by Trizol® Reagent (Invitrogen, USA), and followed by RNeasy Mini Kit (Qiagen, Germany).
|
| Label |
Cy3
|
| Label protocol |
0.5 μg of total RNA was amplified by a Fluorescent Linear Amplification Kit (Agilent Technologies, USA) and labeled with Cy3-CTP or Cy5-CTP (CyDye, PerkinElmer, USA) during the in vitro transcription process.
|
| |
|
| |
| Hybridization protocol |
2 μg of Cy-labled cRNA was fragmented to an average size of about 50-100 nucleotides by incubation with fragmentation buffer (Agilent Technologies, USA) at 60oC for 30 minutes. Correspondingly fragmented labeled cRNAs and hybridization buffer (Agilent In Situ Hybridization Kit Plus) were then pooled and applied to microarrays enclosed in Agilent SureHyb-enabled hybridization chambers at 60°C for 17 h. After hybridization, slides were washed and drying.
|
| Scan protocol |
Scanned on an Agilent Technologies Scanner G2505B scanner.
Images were quantified using Agilent Feature Extraction Software. Data II-1 was analyzed by FE version 8.1.1.1. Other data were analyzed by FE version 9.1.3.1.
|
| Description |
ExpI-1
|
| Data processing |
Agilent Feature Extraction Software was used for background subtraction and LOWESS normalization. Data II-1 was processed by FE version 8.1.1.1. Other data were processed by FE version 9.1.3.1.
|
| |
|
| Submission date |
Jun 03, 2009 |
| Last update date |
Dec 31, 2013 |
| Contact name |
ML Chang |
| Organization name |
CGMH
|
| Street address |
5 Fu-Shin Str.
|
| City |
Taoyuan |
| ZIP/Postal code |
33305 |
| Country |
Taiwan |
| |
|
| Platform ID |
GPL2881 |
| Series (1) |
| GSE16403 |
Transcriptional profiling of Hepatitis C virus HCV core transgenic mice liver |
|
