Spatial & Functional
Genomics Affinity Group

Genome-wide open chromatin mapping (ATAC-seq)

The >3 billion nucleotide human genome is wrapped around histone octamers called nucleosomes, which are folded into higher-ordered chromatin fibers to allow packaging into the nucleus of the cell. For this reason, most of the genome is not accessible. Because all processes that regulate gene expression occur in regions of open chromatin, a map of the open chromatin 'landscape' represents a powerful resource that can focus research to regions with functional significance. We generate genome-wide, cellular open chromatin maps using ATAC-seq (Assay for Transposase-Accessible Chromatin sequencing, Nat. Methods 10:1213, 2013). The key component of this process is a mutant hyperactive Tn5 transposable element that carries a sequence tag identifier and 'jumps' into accessible regions of nuclear DNA. These mutant elements lack the normal ability to repair double-stranded DNA cuts, resulting in excision