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Open Access Publications from the University of California

Characterization of chromatin accessibility with a transposome hypersensitive sites sequencing (THS-seq) assay.

  • Author(s): Sos, Brandon Chin
  • Fung, Ho-Lim
  • Gao, Derek Rui
  • Osothprarop, Trina Faye
  • Kia, Amirali
  • He, Molly Min
  • Zhang, Kun
  • et al.

Chromatin accessibility captures in vivo protein-chromosome binding status, and is considered an informative proxy for protein-DNA interactions. DNase I and Tn5 transposase assays require thousands to millions of fresh cells for comprehensive chromatin mapping. Applying Tn5 tagmentation to hundreds of cells results in sparse chromatin maps. We present a transposome hypersensitive sites sequencing assay for highly sensitive characterization of chromatin accessibility. Linear amplification of accessible DNA ends with in vitro transcription, coupled with an engineered Tn5 super-mutant, demonstrates improved sensitivity on limited input materials, and accessibility of small regions near distal enhancers, compared with ATAC-seq.

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