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Single-cell epigenomics and high-density genetic variation resolve the architecture of the Treg regulatory network [scATAC-seq]

ABSTRACT: To systematically examine the transcription factors and cis-regulatory elements that shape diverse Treg regulatory programs, we used single-cell Assay for Transposase-Accessible Chromatin with high-throughput sequencing (scATAC-seq) to generate chromatin accessibility profiles of mouse regulatory and conventional T cells from different organs and genetic backgrounds.

ORGANISM(S): Mus musculus

PROVIDER: GSE216910 | GEO | 2023/02/01

REPOSITORIES: GEO

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FoxP3 associates with enhancer-promoter loops to regulate Treg-specific gene expression [ATAC-seq]

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A simple and robust plate-based single-cell ATAC-seq on various tissues and cell lines

Project description:The assay for transposase-accessible chromatin using sequencing (ATAC-seq) is widely used to identify regulatory regions throughout the genome. However, only a few studies have been done at the single cell level (scATAC-seq) due to technical difficulties. Here we developed a simple and robust plate-based scATAC-seq method, combining upfront bulk tagmentation with single-nuclei sorting, to investigate open chromatin regions. We applied this method on mouse splenocytes and unbiasedly revealed key regulatory regions and transcription factors that define each cell (sub)type.

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Single-cell chromatin accessibility data using scATAC-seq

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