|
| Status |
Public on Nov 30, 2007 |
| Title |
Non-tumorous liver tissues of parkin-/- mice compared with normal livers of wild-type mice |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
non-tumorous liver tissues of parkin–/– mice
|
| Organism |
Mus musculus |
| Characteristics |
strain: 129/C57BL6SJL (75/25) genetic background (parkin-/- mice), age: 72weeks, tissue: non-tumorous liver tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was extracted from tissues using RNA assay Mini Kit (Qiagen)
|
| Label |
Cy5
|
| Label protocol |
The RNA was amplified and labeled by the Low RNA Input Fluorescent Linear Amplification Kit (Agilent). To synthesize cDNA, 500 ng total RNA
was used. Sample were labeled by cyanine5 (PerkinElmer Life Science, Inc., Boston, MA).
|
| |
|
| Channel 2 |
| Source name |
normal liver tissues of wild-type mice
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL6
age: 72weeks, tissue: normal liver tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was extracted from tissues using RNA assay Mini Kit (Qiagen)
|
| Label |
Cy3
|
| Label protocol |
The RNA was amplified and labeled by the Low RNA Input Fluorescent Linear Amplification Kit (Agilent). To synthesize cDNA, 500 ng total RNA
was used. Sample were labeled by cyanine5 (PerkinElmer Life Science, Inc., Boston, MA).
|
| |
|
| |
| Hybridization protocol |
First-strand cDNA was synthesized from 500 ng of total RNA in the presence of Cy5 or Cy3 dCTP. The Cy3- and Cy5-labeled samples derived from wild-type and parkin–/– mice at 72 weeks of age were injected simultaneously into the same spot of the whole mouse 60-mer oligo microarray (Agilent Technologies, Palo Alto, CA). After hybridization at 65 ℃ for 17 h, the slides were washed with 6 × SSC containing 0.005% TritonX-102, and dried using a nitrogen-filled air gun.
|
| Scan protocol |
feature extraction was performed using an Agilent G2565AA Microarray Scanner with feature extraction software (version 8.5.1.1; Agilent Technologies).
|
| Description |
There are no additional information.
|
| Data processing |
Data were analysed using Agilent Feature Extraction Software version
8.5.1.1. A rank consistency filter and LOWESS were used for dye normalization.
|
| |
|
| Submission date |
Nov 20, 2007 |
| Last update date |
Aug 14, 2011 |
| Contact name |
mikio fujiwra |
| E-mail(s) |
mikiof@kuhp.kyoto-u.ac.jp
|
| Organization name |
Kyoto University
|
| Street address |
54 Kawahara-cho, Shogoin Sakyo-ku
|
| City |
Kyoto |
| ZIP/Postal code |
606-8507 |
| Country |
Japan |
| |
|
| Platform ID |
GPL2872 |
| Series (1) |
| GSE9651 |
Parkin as a Tumor Suppressor Gene for Hepatocellular Carcinoma |
|
