Work

A modified CUT&RUN-seq technique for qPCR analysis of chromatin-protein interactions

Year: 2022

Type: article

Abstract: Chromatin immunoprecipitation coupled with quantitative PCR (ChIP-qPCR) even with optimization may give low signal-to-background ratio and spatial resolution. Here, we adapted Cleavage Under Targets and Release Using Nuclease (CUT&RUN) (originally developed by the Henikoff group) to develop CUT&RUN-qPCR. By studying the recruitment of selected proteins (but amenable to other proteins), we find that CUT&RUN-qPCR is more sensitive and gives better spatial resolution than ChIP-qPCR. For complete details on the use and execution of this protocol, please refer to Skene et al. (2018) and Skene and Henikoff (2017).

Source: STAR Protocols

DOI: 10.1016/j.xpro.2022.101529

Authors: Arvind Panday, Rajula Elango, Nicholas A. Willis, Ralph Scully

Institutions: Beth Israel Deaconess Medical Center, Harvard University

Language: English

Topic: Genomics and Chromatin Dynamics

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

SDG: Good health and well-being

Open Access status: gold

Estimated APC paid: $1,500