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Series GSE104481 Query DataSets for GSE104481
Status Public on Jun 04, 2018
Title ChIP-Seq of H4K5acK8ac, H3K27ac, H3K4me1, H3K4me3, H3K36me3, H3K9me3, H3K27me3 and BRD2 in H23 NSCLC cell line
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The bromodomain and extra-terminal domain (BET) proteins are known as drug targets in diseases. However, the BET protein association profile to histone H4 hyperacetylation is not well understood and BET inhibition effects have been studied more in the context of BRD4 than BRD2. Here, by integrating chromatin and transcriptome analyses of ChIP-seq and Cap Analysis Gene Expression (CAGE) datasets, we show that di-acetylation at K5 and K8 of histone H4 (H4K5acK8ac) co-localizes with H3K27ac and BRD2 in the majority of active enhancers and promoters, where BRD2 has a stronger association with H4K5acK8ac than H3K27ac. Interestingly, although BET inhibition by JQ1 led to complete reduction of BRD2 binding, only local changes of H4K5acK8ac were observed and surprisingly a remarkable number of BRD2-bound genes including MYC and its target genes were upregulated. Using BRD2-enriched sites and transcriptional activity analysis, we identified candidate transcription factors (TFs) potentially involved in the JQ1 response in BRD2-dependent and independent manner.
 
Overall design ChIP-Seq of H4K5acK8ac, H3K27ac, H3K4me1, H3K4me3, H3K36me3, H3K9me3, H3K27me3 and BRD2 in H23 NSCLC cell line
 
Contributor(s) Minoda A, Umehara T
Citation(s) 30080437
Submission date Oct 02, 2017
Last update date May 15, 2019
Contact name Aki Minoda
E-mail(s) akiko.minoda@riken.jp
Phone +81-(0)45-503-9309
Organization name RIKEN
Department CLST
Lab DGT
Street address 1-7-22 Suehiro-cho Tsurumi-ku W421
City Yokohama
State/province Kanagawa
ZIP/Postal code 230-0045
Country Japan
 
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (23)
GSM2801170 H23_H4K5acK8ac_REP1
GSM2801171 H23_H4K5ac_REP1
GSM2801172 H23_H4K8ac_REP1
This SubSeries is part of SuperSeries:
GSE113715 ChIP-Seq and CAGE profiling of cell lines
Relations
BioProject PRJNA412811
SRA SRP119243

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
GSE104481_RAW.tar 62.3 Mb (http)(custom) TAR (of NARROWPEAK)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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