|
| Status |
Public on Mar 31, 2015 |
| Title |
Control-2 |
| Sample type |
RNA |
| |
|
| Source name |
Caco-2 cells, non-treatment
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Caco-2
treatment: none
|
| Treatment protocol |
Caco-2 cells were treated with 1 mM carnosine for 3 days. Three independent experiments were performed.
|
| Growth protocol |
Caco-2 cells were cultured in DMEM medium supplemented with 10% FBS.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from cells using TRIzol Reagent (nitrogen) and purified using SV Total RNA Isolation System (Promega).
|
| Label |
Cy3
|
| Label protocol |
cRNA was amplified and labelled using a Low Input Quick Amp Labelling Kit (Agilent Technologies).
|
| |
|
| Hybridization protocol |
cRNA was hybridized to a 44K 60-mer oligomicroarray (Whole Human Genome Microarray Kit v2; Agilent Technologies) according to the manufacturer's instructions.
|
| Scan protocol |
The hybridized microarray slides were scanned using an Agilent scanner. The relative hybridization intensities and background hybridization values were calculated using Feature Extraction Software version 9.5.1.1 (Agilent Technologies).
|
| Description |
Replicate2
|
| Data processing |
The scanned images were analyzed with Feature Extraction Software 9.5.1.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. The raw signal intensities and flags for each probe were calculated from the hybridization intensities and spot information according to the procedures recommended by Agilent Technologies using the Flag criteria in the GeneSpring Software. In addition, the raw signal intensities of all samples were normalized by the quantile algorithm with the Bioconductor.
|
| |
|
| Submission date |
Sep 16, 2014 |
| Last update date |
Mar 31, 2015 |
| Contact name |
Yoshinori KATAKURA |
| E-mail(s) |
katakura@grt.kyushu-u.ac.jp
|
| Organization name |
Kyushu University
|
| Department |
Graduate School of Systems Life Sciences
|
| Street address |
6-10-1, Hakozaaaki, Higashi-ku
|
| City |
Fukuoka |
| State/province |
Fukuoka |
| ZIP/Postal code |
812-8581 |
| Country |
Japan |
| |
|
| Platform ID |
GPL13497 |
| Series (1) |
| GSE61455 |
Gene expression profile in Caco-2 cells treated with carnosine |
|
