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Series GSE90772 Query DataSets for GSE90772
Status Public on May 24, 2017
Title Genome-wide analysis of AR binding and comparison with transcript expression in primary human fetal prostate fibroblasts and cancer associated fibroblasts
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary We applied ChIPseq to identify genomic AR binding sites for the first time in primary human fetal prostate fibroblasts and patient derived cancer associated fibroblasts, as well as the WPMY1 cell line overexpressing AR. We identified AR binding sites that were specific to fetal prostate fibroblasts (7534), cancer fibroblasts (629), WPMY1-AR (2561) as well as those common among all (783). Primary fibroblasts had a distinct AR binding profile versus prostate cancer cell lines and tissue, and showed a localisation to gene promoter binding sites 1kb upstream of the transcriptional start site, as well as non-classical AR binding sequence motifs. We used RNAseq to define transcribed genes associated with AR binding sites and derived cistromes for embryonic and cancer fibroblasts as well as a cistrome common to both. These were compared to several in vivo ChIPseq and transcript expression datasets; which identified subsets of AR targets that were expressed in vivo and regulated by androgens in order to define for the first time which cellular subpopulations might be the true source of AR-associated signals.
 
Overall design Examination of AR binding profile in 3 cell types.
 
Contributor(s) Nash CE, Thomson AA
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Submission date Dec 01, 2016
Last update date May 15, 2019
Contact name Claire Elizabeth Nash
E-mail(s) nash.claire@gmail.com
Organization name Research Institute of McGill University Health Centre
Department Urology
Lab Dr A Thomson
Street address 1001 Decarie Blvd
City Montréal
State/province QC
ZIP/Postal code H3G 1A4
Country Canada
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (7)
GSM2412292 EPF_AR_ChIPSeq
GSM2412293 CAF_AR_ChIPSeq
GSM2412294 WPMY-AR_AR_ChIPSeq
Relations
BioProject PRJNA355876
SRA SRP094443

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
GSE90772_RAW.tar 2.0 Gb (http)(custom) TAR (of BIGWIG, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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