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

ABSTRACT: 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.

SUBMITTER: Sos BC

PROVIDER: S-EPMC4743176 | biostudies-literature | 2016 Feb

REPOSITORIES: biostudies-literature

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

Sos Brandon Chin BC Fung Ho-Lim HL Gao Derek Rui DR Osothprarop Trina Faye TF Kia Amirali A He Molly Min MM Zhang Kun K

Genome biology 20160204

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 acce ...[more]

PMID: 26846207

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