|
| Status |
Public on Jun 01, 2016 |
| Title |
VCap_DMSO |
| Sample type |
RNA |
| |
|
| Source name |
Prostate cancer cell, 48hr, DMSO, replicate 1
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: VCap
gender: male
|
| Treatment protocol |
LNCap and VCap cells were added 10nM OBP and incubated for 48 hours at 37 ºC in a humidified incubator with 5% CO2.
|
| Growth protocol |
LNCap and VCap cell lines were purchased from ATCC (Manassas, VA, USA). These cells were cultured in RPMI 1640 (Life Technologies, Carlsbad, CA) supplemented with 10% heat-inactivated fetal bovine serum at 37 ºC in a humidified incubator with 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using TRIzol (Life Technologies) following the manufacturer's recommendations. RNA was quantified using a NanoDrop-2000.
|
| Label |
Cy3
|
| Label protocol |
One hundred ng of total RNA was labeled with pCp-Cy3 (Agilent Technologies) and 15 units of T4 RNA ligase (GE Healthcare, Little Chalfont, Buckinghamshire, UK) at 16°C for 2 hours.
|
| |
|
| Hybridization protocol |
Labeled samples were purified with MicroBio-Spin 6 columns (Bio-Rad, Richmond, CA) and hybridized to microarray at 55 °C with rotation at 20 rpm for 20 hours.
|
| Scan protocol |
Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505C) using one color scan setting for 8x60k array slides.
|
| Description |
miRNA expression after 48hr in induction of DMSO
|
| Data processing |
The scanned images were analyzed with Feature Extraction Software 10.7.1.1 (Agilent) using default parameters (protocol miRNA_107_Sep09) to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
|
| |
|
| Submission date |
Jun 02, 2015 |
| Last update date |
Jun 01, 2016 |
| Contact name |
Keisuke Katsushima |
| E-mail(s) |
kkeisuke@med.nagoya-cu.ac.jp
|
| Phone |
+81-052-853-8196
|
| Organization name |
Nagoya City University Graduate School of Medical Sciences
|
| Department |
Department of Epigenomics
|
| Lab |
Yutaka Kondo
|
| Street address |
1 Kawasumi, Mizuho-cho, Mizuho-ku
|
| City |
Nagoya |
| ZIP/Postal code |
467-8601 |
| Country |
Japan |
| |
|
| Platform ID |
GPL18046 |
| Series (2) |
| GSE69487 |
Development of miRNA expression signatures for induction of histone deacetylase inhibitor (part 1) |
| GSE69489 |
Inhibition of Histone Deacetylase induces miR-320-mediated Androgen Receptor Suppression in Prostate Cancer |
|
