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Series GSE71704 Query DataSets for GSE71704
Status Public on Feb 12, 2016
Title Activation of P-TEFb by androgen receptor-regulated enhancer RNAs in androgen deprivation conditions [ChIP-Seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Androgen receptor (AR) is required for castration resistant prostate cancer (CRPC) progression, but the function and disease relevance of AR-bound enhancers remain poorly understood. Here, we identify a group of AR-regulated enhancer RNAs (e.g. PSA eRNA) that are upregulated in CRPC cells, patient-derived xenografts (PDX) and patient tissues. PSA eRNA binds to CYCLIN T1, activates P-TEFb and promotes in cis and trans gene transcription by increasing serine-2 phosphorylation of RNA polymerase II (Pol II-Ser2p). To avoid the total Pol II changing by PSA eRNA. We measured the total Pol II using N20 and 8WG16 antibodies with or without PSA eRNA knocking down. To avoid the AR binding changes by PSA eRNA, we also measured the AR binding using AR N20 antibodies with or without PSA eRNA knocking down.
 
Overall design Androgen receptor (AR) binding sites in human prostate cancer cell lines, C4-2, were studied using ChIP-seq. Total Pol II Ser-2p and AR binding sites in human prostate cancer cell lines C4-2 with or without PSA eRNA knockdown, were studied using ChIP-seq. ChIP enriched DNA were sequenced using Illumina HiSeq 2500and input DNA were sequenced using Illumina HiSeq 2000.
 
Contributor(s) Huang H, Zhao Y, Wang L
Citation(s) 27068475, 27221037
Submission date Aug 04, 2015
Last update date Mar 27, 2020
Contact name LIGUO WANG
E-mail(s) wang.liguo@mayo.edu
Organization name Mayo Clinic
Department Division of Computational Biology
Street address 200 1st St SW
City Rochester
State/province MN
ZIP/Postal code 55905
Country USA
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (12)
GSM1843409 AR_C42_NS_rep1
GSM1843410 AR_C42_NS_rep2
GSM1843411 AR_C42_siPSA-eRNA_rep1
This SubSeries is part of SuperSeries:
GSE55032 Activation of the P-TEFb Complex by Lethal Prostate Cancer-Associated Enhancer RNAs
Relations
BioProject PRJNA291864
SRA SRP062009

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
GSE71704_RAW.tar 2.5 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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