ATAC-seq

ATAC-seq (Assay for Transposase-Accessible Chromatin with high-throughput sequencing) is a method for determining chromatin accessibility across the genome. It utilizes a hyperactive Tn5 transposase to insert sequencing adapters into open chromatin regions (Figure 1). High-throughput sequencing then yields reads that cluster within these regions of increased accessibility.

ATAC-seq can been used to

  • profile open chromatin regions;

  • identify differentially accessible regions (for multiple-sample experiments);

  • identify transcription factor (TF) footprints;

  • infer nucleosome positioning (in the TSS region).


Figure 1. Overview of ATAC-seq (Buenrostro et al., 2015).
../../_images/atac-seq-figure1.png


The tutorials in this section cover the steps oulined on Figure 2.

Figure 2. Overview of ATAC-seq analysis.
../../_images/workflow-analysis.png


These are tutorials for analysis an QC of ATAC-seq data:

Tutorials for processing the results after identification of occupancy regions (i.e. peaks or broad domains) can be found in Downstream Processing .