DNase-Seq/DNasel-Seq

DNase-Seq/DNasel-Seq

DNase l hypersensitive sites sequencing (DNase-Seq) is based on a well-established DNase I footprinting protocol  that was optimized for sequencing . In this method, DNA-protein complexes are treated with DNase l, and the DNA is then extracted and sequenced. Sequences bound by regulatory proteins are protected from DNase l digestion. Deep sequencing provides accurate representation of the location of regulatory proteins in genome. In a variation on this approach, the DNA-protein complexes are stabilized by formaldehyde crosslinking before DNase I digestion. The crosslinking is reversed before DNA purification. In an alternative modification, called GeF-Seq, both the crosslinking and the DNase I digestion are carried out in vivo, within permeabilized cells .

• DNase-Seq: Boyle A. P. et al. (2008) High-resolution mapping and characterization of open chromatin across the genome. Cell 132: 311-322
• DNaseI-Seq: Hesselberth J. R. et al. (2009) Global mapping of protein-DNA interactions in vivo by digital genomic footprinting. Nat Methods 6: 283-289

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