Simultaneous Single-Cell Profiling of the Transcriptome and Accessible Chromatin Using SHARE-seq

Overview

Journal Methods Mol Biol

Specialty Molecular Biology

Date 2023 Feb 22

PMID 36807070

Authors

Samuel H Kim

Georgi K Marinov

S Tansu Bagdatli

Soon Il Higashino

Zohar Shipony

Anshul Kundaje

William J Greenleaf

Affiliations

Soon will be listed here.

Abstract

The ability to analyze the transcriptomic and epigenomic states of individual single cells has in recent years transformed our ability to measure and understand biological processes. Recent advancements have focused on increasing sensitivity and throughput to provide richer and deeper biological insights at the cellular level. The next frontier is the development of multiomic methods capable of analyzing multiple features from the same cell, such as the simultaneous measurement of the transcriptome and the chromatin accessibility of candidate regulatory elements. In this chapter, we discuss and describe SHARE-seq (Simultaneous high-throughput ATAC, and RNA expression with sequencing) for carrying out simultaneous chromatin accessibility and transcriptome measurements in single cells, together with the experimental and analytical considerations for achieving optimal results.

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