|
| Status |
Public on Dec 07, 2010 |
| Title |
brain_at 12h after trauma_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
lateral cortex, traumatic brain injury
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Wistar
gender: male
age: 8 weeks old
tissue: brain, lateral cortex
stress: moderate fluid percussion injury
time: 12h
|
| Treatment protocol |
Rats were transcardially perfused with physiological saline under general anesthesia at 3, 6, 12 and 48 h after moderate fluid percussion or the sham operation. The brains were quickly removed and cut coronally into 2-mm-thick sections. The cortices that corresponded to the contusion areas were removed. They were then placed in RNAlaterTM (Takara, Japan) overnight at 4°C and stored at –20 °C until use.
|
| Growth protocol |
Rats were performed craniectomy of diameter 4.8 mm over the right parietal cortex under general anesthesia. A cranial Leur adapter of inner diameter 2.5 mm was placed on the craniectomy site and mounted to the skull by using dental acrylic resin. The animals were housed for 48 h, and they were then re-anesthetized. The cranial Leur adapter was filled with saline and attached to the fluid percussion device. Animals were subjected to sham or moderate (3.3 ± 0.3 atm) fluid percussions.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Polyadenylated RNA was isolated using the Quickprep micro mRNA purification kit (Amersham, USA) according to the manufacturer’s protocol.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the Affymetrix protocol from 0.4 ug PolyA RNA (One-cycle Target Labeling: GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
|
| |
|
| Hybridization protocol |
cRNA were hybridized on GeneChip rat genome 230 2.0 using the Hybridization Oven 640 110V. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 (Affymetrix 00-0074).
|
| Description |
impacted region
12(M-26)
|
| Data processing |
Data were pre-processed by RMA method, filtered, and normalized using the GeneSpring GX v11.0.2 software (Agilent). Compared data from experimental conditions are normalized versus array's base line median considered for each case.
|
| |
|
| Submission date |
Sep 09, 2010 |
| Last update date |
Dec 07, 2010 |
| Contact name |
Hideki Shojo |
| E-mail(s) |
hshohjoh@yamanashi.ac.jp
|
| Phone |
81-55-273-9546
|
| Fax |
81-55-273-6753
|
| Organization name |
University of Yamanashi
|
| Department |
Graduate School of Medical Science
|
| Lab |
Department of Legal Medicine
|
| Street address |
1110 shimokato
|
| City |
Chuo |
| State/province |
Yamanashi |
| ZIP/Postal code |
409-3898 |
| Country |
Japan |
| |
|
| Platform ID |
GPL1355 |
| Series (1) |
| GSE24047 |
Gene expression profiles after traumatic brain injury |
|
