|
Status |
Public on Sep 01, 2011 |
Title |
E5_vs_pMSG_96h_rep2 (mRNA) |
Sample type |
RNA |
|
|
Channel 1 |
Source name |
pMSG_96h_rep2
|
Organism |
Homo sapiens |
Characteristics |
cell type: skin keratinocytes cell line: HaCaT transfection: vector control time: 96h
|
Treatment protocol |
E5 expression was induced by 1 mM dexamethasone treatment for different times.
|
Growth protocol |
HaCaT-E5 and control cells were grown in D-MEM growth medium with 10% FBS and glutamine and antibiotics, and serum-starved 24h before treatment.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was isolated from confluent cell cultures using TriPure reagent (Roche Applied Science, Indianapolis, IN, USA)
|
Label |
Cy5
|
Label protocol |
Cy5 and Cy3 indirect labelling using (Ambion, Austin, TX) amino allyl messageamp II aRNA amplification kit according to instructions.
|
|
|
Channel 2 |
Source name |
E5_96h_rep2
|
Organism |
Homo sapiens |
Characteristics |
cell type: skin keratinocytes cell line: HaCaT transfection: type 16 E5 oncogene time: 96h
|
Treatment protocol |
E5 expression was induced by 1 mM dexamethasone treatment for different times.
|
Growth protocol |
HaCaT-E5 and control cells were grown in D-MEM growth medium with 10% FBS and glutamine and antibiotics, and serum-starved 24h before treatment.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was isolated from confluent cell cultures using TriPure reagent (Roche Applied Science, Indianapolis, IN, USA)
|
Label |
Cy3
|
Label protocol |
Cy5 and Cy3 indirect labelling using (Ambion, Austin, TX) amino allyl messageamp II aRNA amplification kit according to instructions.
|
|
|
|
Hybridization protocol |
Hybridization was performed as described in the Agilent (Agilent Technologies, Rockville, MD) two color microarray-based gene expression analysis manual suggests. Hybridization for 16 h at +65 ºC. Washing was performed by the Agilent protocol 5 minutes in GE wash buffer 1 and one minute in GE wash buffer 2 (+37ºC). Arrays were dried with a 1 minute spin in a Spectrafuge mini (Labnet, Woodbridge, NJ).
|
Scan protocol |
Default scanning performed with Axon 4200AL for Cy3 and Cy5 using resolution of five micrometer.
|
Description |
mRNA expression in E5 vs control cells after 96h induction
|
Data processing |
quantile normalization of the log2 ratios
|
|
|
Submission date |
Oct 25, 2010 |
Last update date |
Sep 01, 2011 |
Contact name |
Dario Greco |
E-mail(s) |
dario.greco@tuni.fi
|
Organization name |
Tampere University
|
Department |
Faculty of Medicine and Health Technology
|
Lab |
Finnish Hub for Development and Validation of Integrated Approaches (FHAIVE)
|
Street address |
Arvo ylpön Katu 34
|
City |
Tampere |
ZIP/Postal code |
33520 |
Country |
Finland |
|
|
Platform ID |
GPL4133 |
Series (1) |
GSE24908 |
Human Papillomavirus 16 E5 modulates the expression of host microRNAs |
|