Oct 26, 2020 · ATAC-seq generates genome-wide regulatory maps that are highly similar to those derived from DNase-seq and MNase-seq 32, while reducing library preparation complexity and hands-on time.

Mar 21, 2024 · We present a gene-level regulatory model, single-cell ATAC + RNA linking (SCARlink), which predicts single-cell gene expression and links enhancers to target genes using multi-ome (scRNA-seq...

Feb 3, 2020 · Here, we discuss the major steps in ATAC-seq data analysis, including pre-analysis (quality check and alignment), core analysis (peak calling), and advanced analysis (peak differential analysis and annotation, motif enrichment, …

By sequencing regions of open chromatin, ATAC-Seq can help you uncover how chromatin packaging and other factors affect gene expression. ATAC-Seq does not require prior knowledge of regulatory elements, making it a powerful epigenetic discovery tool.

Aug 20, 2024 · For this tutorial, we will be analyzing a single-cell ATAC-seq dataset of human peripheral blood mononuclear cells (PBMCs) provided by 10x Genomics. The following files are used in this vignette, all available through the 10x Genomics website: First load in Signac, Seurat, and some other packages we will be using for analyzing human data.

May 13, 2022 · An assay for transposase-accessible chromatin using sequencing (ATAC-seq), which uses Tn5 transposase to sequence protein-free binding regions of the genome, can be combined with chromatin immunoprecipitation coupled with deep sequencing (ChIP-seq) and ribonucleic acid sequencing (RNA-seq) to provide a detailed description of gene expression.

Here, we discuss the major steps in ATAC-seq data analysis, including pre-analysis (quality check and alignment), core analysis (peak calling), and advanced analysis (peak differential analysis and annotation, motif enrichment, footprinting, and nucleosome position analysis).

5 days ago · Assay for Transposase-Accessible Chromatin Sequencing (ATAC-seq) is a powerful tool that maps open chromatin regions that control gene expression without needing prior knowledge of epigenetic ...

Jan 1, 2020 · Currently, Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-seq) is considered the most accessible and cost-effective strategy for genome-wide profiling of chromatin accessibility.

Learn about ATAC-seq, a cutting-edge technique for chromatin accessibility analysis. Discover its applications in gene regulation, epigenomics, and disease research.