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Methods Mol Biol. 2018;1819:317-333. doi: 10.1007/978-1-4939-8618-7_15.

Simultaneous Profiling of DNA Accessibility and Gene Expression Dynamics with ATAC-Seq and RNA-Seq.

Author information

1
Calico Life Sciences, LLC, South San Francisco, CA 94080, USA.
2
Calico Life Sciences, LLC, South San Francisco, CA 94080, USA. rsm@calicolabs.com.

Abstract

This chapter describes sequencing-based methods for profiling dynamic changes in DNA accessibility and gene expression in Saccharomyces cerevisiae. Assay for transposase-accessible chromatin with high-throughput sequencing (ATAC-Seq) is a powerful technique for identifying nucleosome-free regions of the genome. Combining ATAC-Seq with RNA Sequencing (RNA-Seq) is a rapid approach for studying the relationship between genome structure and changes in global patterns of gene expression from a single experiment. A laboratory protocol is presented for these methods as well as examples of typical results and visualizations.

KEYWORDS:

Chromatin; Gene regulation; Genomics; Transcription; Transcription factors

PMID:
30421411
DOI:
10.1007/978-1-4939-8618-7_15
[Indexed for MEDLINE]

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