|
| Status |
Public on Mar 14, 2012 |
| Title |
NDMC33_gene_str |
| Sample type |
RNA |
| |
|
| Source name |
CRC-13_storoma
|
| Organism |
Homo sapiens |
| Characteristics |
disease: colorectal cancer
tissue type: cancer
tissue: stroma
gender: male
age: 60
tumor-nodes-metastasis classification [t]: 3
tumor-nodes-metastasis classification [n]: 0
tumor-nodes-metastasis classification [m]: 0
sample_id: CRC-13
source classification: NDMC-33T
|
| Treatment protocol |
Laser micro-dissection
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from tissue using the miRNeasy Mini Kit (Qiagen) according to the manufacturer's protocol. Concentrations and purities of the total RNAs were assessed with a spectrophotometer and RNA integrity was verified using an Agilent 2100 Bioanalyzer (Agilent Technologies). OD260/OD280 ratios of 1.8 – 2.1 were accepted to be adequate for microarray.
|
| Label |
Cyanine
|
| Label protocol |
Cyanine (Cy)-labeled cRNA was prepared using T7 linear amplification as described in the Agilent Low RNA Input Fluorescent Linear Amplification Kit Manual (Agilent Technologies).
|
| |
|
| Hybridization protocol |
Each total RNA sample (100 ng) or cRNA was competitively hybridized to a microarray according to the manufacturer's protocol (Wang H, Ach RA, Curry B. Direct and sensitive miRNA profiling from low-input total RNA. RNA. 2007;13:151-9.).
|
| Scan protocol |
Slides were scanned on the Agilent DNA Microarray Scanner (G2505B).
|
| Description |
SAMPLE 41
|
| Data processing |
The intensity of each hybridization signal was evaluated using Extraction Software Version A.7.5.1 (Agilent Technologies), which used the locally weighted linear regression curve fit (LOWESS) normalization method.
|
| |
|
| Submission date |
Feb 07, 2012 |
| Last update date |
Mar 14, 2012 |
| Contact name |
Koshi Mimori |
| E-mail(s) |
kmimori@beppu.kyushu-u.ac.jp
|
| Phone |
81-977-27-1650
|
| Fax |
81-977-27-1651
|
| Organization name |
Kyushu university
|
| Department |
Department of Surgery
|
| Lab |
Kyushu Univeristy Beppu Hospital
|
| Street address |
4546 Tsurumihara
|
| City |
Beppu |
| State/province |
Oita |
| ZIP/Postal code |
874-0838 |
| Country |
Japan |
| |
|
| Platform ID |
GPL6480 |
| Series (1) |
| GSE35602 |
microRNA and Gene expression profiles in colorectal cancer stromal tissue |
|
