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Series GSE4636 Query DataSets for GSE4636
Status Public on Apr 11, 2006
Title Differential redulation of gene expression by an RTI SARM and canonical agonist of androgen receptor
Organism Homo sapiens
Experiment type Expression profiling by array
Summary We have previously identified a family of novel androgen receptor (AR) ligands that, upon binding, enable AR to adopt structures distinct from that observed in the presence of canonical agonists. In this report, we describe the use of these compounds to establish a relationship between AR structure and biological activity with a view to defining a rational approach with which to identify useful Selective Androgen Receptor Modulators (SARMs). As one of the approaches, we used a DNA microarray analysis to demonstrate that differently conformed receptors facilitate distinct patterns of gene expression in LNCaP cells. Interestingly, we observed a complete overlap in the identity of genes expressed following treatment with mechanistically distinct AR ligands. However, it was differences in the kinetics of gene regulation that distinguished these compounds. Follow-up studies, in cell-based assays of AR action, confirmed the importance of these alterations in gene expression. Together these studies demonstrate an important link between AR structure, gene expression and biological outcome.
Keywords: Comparative gene expression analysis, cell culture, prostate carcinoma, androgen receptor, selective modulators of androgen receptor, SARM
 
Overall design In this experiment LNCaP cells (400,000 per 75 cm2 flask) were first incubated in DMEM/8% charcoal-stripped serum to reduce the background hormone exposure, and then were treated with Vehicle (ethanol), DHT (10 nM) or RTI-6413-018 (100 nM). Treatment was done for 6 and 24 hrs. At the end of treatment, cells were collected by trypsization and immediately frozen in liquid nitrogen. Isolation of mRNA was performed using Qiagen Oligotex midi kit. cRNA synthesis, labeling and hybridization were performed by Expression Analysis Institute, Durham, NC. Samples were hybridized to Affymetrix HG.U133 A and B chips.
The entire experiment was repeated 3 times.
 
Contributor(s) Kazmin DA, McDonnell DP
Citation(s) 16574741
Submission date Apr 07, 2006
Last update date Aug 10, 2018
Contact name Dmitri A Kazmin
E-mail(s) dkazmin@stanford.edu
Organization name Stanford University
Department Institute for Immunity, Transplantation and Infection
Lab Bali Pulendran
Street address 240 Pasteur Dr
City Palo Alto
State/province CA
ZIP/Postal code 94304
Country USA
 
Platforms (2)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
GPL97 [HG-U133B] Affymetrix Human Genome U133B Array
Samples (36)
GSM63051 Treatment: vehicle; time: 6 hours; repeat: 1
GSM63122 Treatment: DHT; time: 6 hrs; repeat: 1
GSM64845 Treatment: Vehicle; Time: 24 hrs; Repeat: 1
Relations
BioProject PRJNA95313

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE4636_RAW.tar 121.5 Mb (http)(custom) TAR (of CEL)

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