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Series GSE76336 Query DataSets for GSE76336
Status Public on Sep 05, 2017
Title Novel contribution of acetylated histone variant H2A.Z in activation of neo-enhancers in prostate cancer [ChIP-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Acetylation of the histone variant H2A.Z (H2A.Zac) occurs at active promoters and is associated with oncogene activation in prostate cancer, but its role in enhancer function is still poorly understood. Here we show that H2A.Zac containing nucleosomes are commonly redistributed to neo-enhancers in cancer resulting in a concomitant gain of chromatin accessibility and ectopic gene expression. Notably incorporation of acetylated H2A.Z nucleosomes is a pre-requisite for activation of Androgen receptor (AR) associated enhancers. H2A.Zac nucleosome occupancy is rapidly remodelled to flank the AR sites to initiate the formation of nucleosome-free regions and the production of AR-enhancer RNAs upon androgen treatment. Remarkably higher levels of global H2A.Zac correlate with poorer prognosis. Together these data demonstrate the novel contribution of H2A.Zac in activation of newly formed enhancers in prostate cancer.
Overall design Genome-wide binding analyses of H2A.Z and H2A.Zac in PrEC, LNCaP full media and LNCaP with or without DHT (5alpha-dihydrotestosterone) stimulation (0, 2h, 4h, 16h) using ChIP-Seq, as well as ChIP-seq for 6 histone marks to partition the genome in LNCaP/PrEC cells into different states.
Contributor(s) Valdes-Mora F, Gould CM, Colino-Sanguino Y, Buske FA, Statham AL, Nair SS, Clark SJ
Citation(s) 29116202
Submission date Dec 24, 2015
Last update date Jul 25, 2021
Contact name Fatima Valdes Mora
Phone +61 2 92958334
Organization name Garvan Institute of Medical Research
Department Genomics and Epigenetics
Lab Histone Variant Group
Street address 384 Victoria Street
City Darlinghurst
State/province NSW
ZIP/Postal code 2010
Country Australia
Platforms (4)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (28)
GSM1981413 H2AZ_ChIPseq_PrEC_rep1
GSM1981414 H2AZ_ChIPseq_PrEC_rep2
GSM1981415 H2AZ_ChIPseq_LNCaP_rep1
This SubSeries is part of SuperSeries:
GSE76337 Novel contribution of acetylated histone variant H2A.Z in activation of neo-enhancers in prostate cancer
BioProject PRJNA306940
SRA SRP067780

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
GSE76336_LNCaP_ChromHMM.bed.gz 1.5 Mb (ftp)(http) BED
GSE76336_PrEC_ChromHMM.bed.gz 1.7 Mb (ftp)(http) BED
GSE76336_RAW.tar 5.0 Gb (http)(custom) TAR (of BED, BW) 371.9 Mb (ftp)(http) BW 493.9 Mb (ftp)(http) BW
GSE76336_VCaP_ChromHMM.bed.gz 860.5 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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