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Series GSE64223 Query DataSets for GSE64223
Status Public on Dec 16, 2014
Title The activation of IL-1 induced enhancers depends on TAK1 kinase activity and NF-KB p65 [ChIP-Seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The inflammatory gene response requires activation of the protein kinase TAK1, but it is currently unknown how TAK1-derived signals coordinate transcriptional programs in the genome. We determined the genome-wide binding of the TAK1-controlled NF-κB subunit p65 in relation to active enhancers and promoters of transcribed genes by ChIP-seq experiments. Out of 35,000 active enhancer regions, 410 H3K4me1-positive enhancers show interleukin (IL)-1-induced H3K27ac and p65 binding. Inhibition of TAK1, IKK2 or depletion of p65 blocked inducible enhancer activation and gene expression. As exemplified by the CXC chemokine cluster located on chromosome 4, the TAK1-p65 pathway also regulates the recruitment kinetics of the histone acetyltransferase CBP, of NF-κB p50 and of AP-1 transcription factors to both, promoters and enhancers. This study provides a high resolution view of epigenetic changes occurring during the IL-1 response and allows the first genome-wide identification of a novel class of inducible p65 NF-κB-dependent enhancers in epithelial cells.
 
Overall design ChIP-seq in KB cells with 5 different antibodies under different treatment conditions
 
Contributor(s) Bartkuhn M, Kracht M
Citation(s) 25660023, 34771516
Submission date Dec 16, 2014
Last update date Feb 08, 2022
Contact name Marek Bartkuhn
E-mail(s) marek.bartkuhn@gen.bio.uni-giessen.de
Organization name Justus-Liebig-University Giessen
Department Biomedical Informatics and Systems Medicine
Street address Aulweg 132
City Giessen
State/province Hessen
ZIP/Postal code 35392
Country Germany
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (24)
GSM1566545 ChIP-seq analysis of p65 in KB cells (p65 DMSO )
GSM1566546 ChIP-seq analysis of p65 in KB cells (p65 DMSO IL1)
GSM1566547 ChIP-seq analysis of p65 in KB cells (p65 PHA)
This SubSeries is part of SuperSeries:
GSE64224 The activation of IL-1 induced enhancers depends on TAK1 kinase activity and NF-KB p65
Relations
BioProject PRJNA270473
SRA SRP051202

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Supplementary file Size Download File type/resource
GSE64223_RAW.tar 4.0 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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