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SRX1924753: GSM2229997: H3K4me3_UTX_KO_NKT; Mus musculus; ChIP-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 28.7M spots, 1.4G bases, 896.9Mb downloads

Submitted by: NCBI (GEO)
Study: UTX controls lineage-specific epigenetic program of iNKT cells
show Abstracthide Abstract
NKT cells are innate-like lymphocytes that protect against infection, autoimmune disease, and cancer. However, little is known about epigenetic regulation of iNKT cell development. Here, we show that the H3K27me3 histone demethylase UTX is an essential cell-intrinsic factor that controls an iNKT lineage specific gene expression program and epigenetic landscape in a demethylase activity dependent manner. UTX-deficient iNKT cells exhibit impaired expression of iNKT signature genes due to a decrease in activation-associated H3K4me3 and an increase in repressive H3K27me3 marks within the promoters that UTX occupies. Notably, we identified JunB as a novel regulator of iNKT development that partners with UTX to establish an iNKT lineage specific gene expression program. Moreover, we demonstrate that UTX-mediated regulation of super-enhancer accessibility is a key mechanism for iNKT lineage commitment. These findings uncover how UTX regulates iNKT cell development through multiple epigenetic mechanisms. Overall design: Chromatin profiles of Wild type and UTX-KO iNKT cells were generated by ChIP-seq and ATAC-seq using Illumina platform.
Sample: H3K4me3_UTX_KO_NKT
SAMN05371524 • SRS1553412 • All experiments • All runs
Organism: Mus musculus
Library:
Instrument: Illumina HiSeq 2500
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: SINGLE
Construction protocol: Thymi were removed from mice and NKT cells were sorted from thymocytes by flow cytometry. For ChIP-seq, lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. For ATAC-seq, DNA was isolated following transopsition reaction. Libraries were prepared according to instructions for ChIP-seq using NEBNext ChIP-Seq Library Prep Master Mix Set for Illumina kit and for ATAC-seq using Illumina Nextera DNA preparation kit
Experiment attributes:
GEO Accession: GSM2229997
Links:
Runs: 1 run, 28.7M spots, 1.4G bases, 896.9Mb
Run# of Spots# of BasesSizePublished
SRR382477728,729,5271.4G896.9Mb2016-07-13

ID:
2773006

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