Characterization of chromatin accessibility with a transposome hypersensitive sites sequencing (THS-seq) assay. Issue 1 (December 2016)

• Record Type: Journal Article
• Authors: Sos, Brandon; Fung, Ho-Lim; Gao, Derek; Osothprarop, Trina; Kia, Amirali; He, Molly; Zhang, Kun
• Is Part Of: Genome biology. Volume 17:Issue 1(2016)
• Page Start: 1
• Page End: 15
• Publication Date: 2016-12
• Subjects: Genomes -- Periodicals; Biology -- Periodicals; Molecular biology -- Periodicals; 572.8633
• DOI: 10.1186/s13059-016-0882-7
• Languages: English
• ISSNs: 1474-760X

Abstract

Abstract Chromatin accessibility capturesin 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 within 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.