|
| Status |
Public on Mar 31, 2016 |
| Title |
HeLa haboring control shRNA #1 |
| Sample type |
RNA |
| |
|
| Source name |
HeLa, control, rep1
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: HeLa
transfectant: control shRNA
|
| Treatment protocol |
AK4 was knockdown by shRNA
|
| Growth protocol |
DMEM 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 SurePrint G3 Human GE Microarray Kit 8x60K 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).
|
| 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 seven samples were normalized by the quantile algorithm with the Bioconductor.
|
| |
|
| Submission date |
Sep 29, 2014 |
| Last update date |
Mar 31, 2016 |
| Contact name |
Koichi Fujisawa |
| E-mail(s) |
fujisawa@yamaguchi-u.ac.jp
|
| Organization name |
Yamaguchi University Graduate School of Medicine
|
| Department |
Department of Gastroenterology and Hepatology
|
| Street address |
1-1-1, minami-kogushi
|
| City |
Ube |
| State/province |
Yamaguchi |
| ZIP/Postal code |
755-8505 |
| Country |
Japan |
| |
|
| Platform ID |
GPL17077 |
| Series (1) |
| GSE61843 |
Inhibition of AK4 expression increases drug sensitivity and elevates mitochondrial ATP synthesis |
|
