GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE43785 Query DataSets for GSE43785
Status Public on Jan 01, 2015
Title Redefinition of Human Androgen Responsive Elements [ChIP-Seq, RNA-Seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary The androgen receptor (AR) mediates the action of androgens by binding to androgen-responsive elements (AREs) and subsequently regulating target genes involved in prostate carcinogenesis. The precise locations, true nature, and functional roles of AREs in human prostate cancer are still unknown. Here we redefine AREs by motif-resolution AR chromatin immunoprecipitation-exonuclease (ChIP-exo) assay in human prostate cancer cells and tumors. Surprisingly, we find that, in addition to canonical full-length AREs and half-site-like AREs, a significant portion of the four redefined ARE categories comprises non-canonical full-length AREs. The redefined AREs in enhanced AR binding regions in prostate tumors versus paired non-malignant adjacent tissues regulate a prostate cancer-relevant gene network not only centered on AR, but more interestingly, on novel AR target genes mTOR, BIRC5 and BCL2L1 involved in prostate cancer cell growth and survival. The precise redefinition of AREs has important implications for understanding how AR contributes to prostate carcinogenesis.
Overall design To accurately define ARE in human genome and identify cancer related AR binding site, AR ChIP-exo is performed in LNCaP cells before/after androgen stimulation, malignant prostate tumors and non-malignant adjacent tissues. Each experiment includes two replicates.
Contributor(s) Wang Q, Chen Z
Citation(s) 25535248
Submission date Jan 27, 2013
Last update date May 15, 2019
Contact name Xun Lan
Phone 7738345917
Organization name Stanford University
Department Genetics
Lab Pritchard's Lab
Street address 318 Campus Dr. Room S240
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (20)
GSM1071276 LNCaP control [ChIP-exo replicate 1 ]
GSM1071277 LNCaP control [ChIP-exo replicate 2 ]
GSM1071278 LNCaP control [RNA-seq replicate 1 ]
This SubSeries is part of SuperSeries:
GSE43791 Redefinition of Human Androgen Responsive Elements
BioProject PRJNA187482
SRA SRP018241

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
GSE43785_LNCaP_RNAseq_edgeR_DHT_downRegulated_pvalue_0.01.txt.gz 300.8 Kb (ftp)(http) TXT
GSE43785_LNCaP_RNAseq_edgeR_DHT_upRegulated_pvalue_0.01.txt.gz 323.8 Kb (ftp)(http) TXT
GSE43785_RAW.tar 63.3 Gb (http)(custom) TAR (of BED, TAGALIGN)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap