|
Status |
Public on Mar 01, 2015 |
Title |
healthy control S011 |
Sample type |
RNA |
|
|
Source name |
Serum
|
Organism |
Homo sapiens |
Characteristics |
disease state: healthy control tissue: serum gender: Male tumor stage: uncertain age: 62 operability: uncertain
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted each from 300uL serum samples using 3D-Gene® RNA extraction reagent from liquid sample kit (Toray Industries, Inc.). Total RNA was also obtained from the FFPE sections using the Arcturus® Paradise® Extraction and Isolation kit (Life Technologies) in accordance with the manufacturer's instructions.
|
Label |
Cy5
|
Label protocol |
miRNA was labeled using 3D-Gene® miRNA Labeling kit in accordance with the manufacturer's instructions.
|
|
|
Hybridization protocol |
Hybridized for 16 h at 32 ºC with rotary shaker (250 rpm). Hybridization buffer and washing protocol was attached in the 3D-Gene® miRNA oligo chip kit.
|
Scan protocol |
3D-Gene® Scanner (Toray Industries, Inc.) was used for scanning. Images were quantified using Extraction version 2.0.0.6 (Toray Industries, Inc.).
|
Description |
miRNA profiling
|
Data processing |
Mean and standard deviation (SD) of the 5% trimmed signals of the negative controls were calculated. Signals of miRNAs over mean+2SD of the negative controls were subtracted with the mean of the negative controls. The undetected signal was replaced with the value that was the least signal intensity on each DNA chip minus 0.1 in log2 scale followed by quantile normalization.
|
|
|
Submission date |
Jul 29, 2014 |
Last update date |
Mar 01, 2015 |
Contact name |
Ichikawa Makiko |
E-mail(s) |
makiko.ichikawa.d3@mail.toray
|
Organization name |
Toray Industries, Inc.
|
Lab |
New Frontiers Research Laboratories
|
Street address |
6-10-1
|
City |
Kamakura |
State/province |
Kanagawa |
ZIP/Postal code |
248-0036 |
Country |
Japan |
|
|
Platform ID |
GPL18941 |
Series (1) |
GSE59856 |
MicroRNA markers for the diagnosis of pancreatic and biliary tract cancers |
|