|
| Status |
Public on Sep 01, 2010 |
| Title |
LNCaP-ethanol-8h-rep1, replicate section |
| Sample type |
RNA |
| |
|
| Source name |
0.1% ethanol 8h
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: prostate cancer
agent: 0.1% ethanol
time point: 8h
growth media: RPMI + 10% charcoal stripped FBS for 72h before treatment
|
| Treatment protocol |
1nM R1881 (synthetic androgen) or 0.1% ethanol (vehicle control) were added and RNA samples harvested at time points between 0.5h and 24h, as indicated.
|
| Growth protocol |
LNCaP cells grown in phenolred-free RPMI supplemented with 10% charcaol dextran stripped FBS for 72h prior to treatement.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol and isopropanol precipitation, according to the manufacturers instructions. Quality control was performed with an Agilent Bioanalyser.
|
| Label |
biotin
|
| Label protocol |
cRNA was generated and biotin labelled using the Illumina TotalPrep RNA Amplification Kit, according to the manufacturers instructions.
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
replicate 1
4117151201_B_2
|
| Data processing |
The Illumina HumanWG v2 BeadArrays consist of two replicate sections that we treat as technical replicate arrays for the purposes of this analysis due to small but systematic shifts between sections that need to be addressed in the normalization. Data were analysed from the raw bead-level using the beadarray software, with spatial artefacts identified and removed automatically (BASH) and curated manually (Cairns et al., 2008; Dunning et al., 2007)
|
| |
|
| Submission date |
Oct 22, 2009 |
| Last update date |
May 22, 2010 |
| Contact name |
Charlie Edward Massie |
| E-mail(s) |
charlie.massie@cancer.org.uk
|
| Phone |
0044 (0)1223-404450
|
| Organization name |
Cambridge University and Cancer Research UK
|
| Department |
Oncology
|
| Lab |
Uro-Oncology Research Group
|
| Street address |
CRUK CRI, Robinson Way
|
| City |
Cambridge |
| State/province |
CAMBS |
| ZIP/Postal code |
CB0 2RE |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL6102 |
| Series (1) |
| GSE18684 |
Fine mapping of androgen regulated genes in LNCaP cells |
|
