Cleavage Under Targets & Release Using Nuclease (CUT&RUN) Protocols for the Study of Genetic and Epigenetic Regulation in Cancer.

Stefan Custers, Erika Apel, Yujin Suk, Chitra Venugopal, Sheila K Singh, Etienne Danis

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Article in Methods in molecular biology (Clifton, N.J.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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6 authors.

Stefan CustersDepartment of Biochemistry and Biomedical Sciences, Department of Surgery, McMaster Centre for Discovery in Cancer Research, McMaster University, Hamilton, ON, Canada.

Erika ApelDepartment of Biochemistry and Biomedical Sciences, McMaster Centre for Discovery in Cancer Research, McMaster University, Hamilton, ON, Canada.

Yujin SukDepartment of Biochemistry and Biomedical Sciences, Michael G. DeGroote School of Medicine, and McMaster Centre for Discovery in Cancer Research, McMaster University, Hamilton, ON, Canada.

Chitra VenugopalDepartment of Biochemistry and Biomedical Sciences, Department of Surgery, McMaster Centre for Discovery in Cancer Research, McMaster University, Hamilton, ON, Canada.

Sheila K SinghDepartment of Biochemistry and Biomedical Sciences, Department of Surgery, and McMaster Centre for Discovery in Cancer Research, McMaster University, Hamilton, ON, Canada.

Etienne DanisBiostatistics and Bioinformatics Shared Resource, University of Colorado Cancer Center, Aurora, CO, USA. ETIENNE.DANIS@cuanschutz.edu.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Cancer cell malignancy is regulated by a variety of mechanisms, collectively termed the hallmarks of cancer. At the core of these regulative processes are genetic and epigenetic perturbations that play an essential role in neoplasmic formation. Advances in molecular techniques have enabled the in-depth research of the epigenome by means of epigenetic profiling, a process that has been dominated by the chromatin immunoprecipitation (ChIP) method. Even though ChIP has dominated the field, the technique is hindered by limitations such as high background noise, requirement of a large number of cells, requirement of antibodies with high pull-down efficiency, and crosslinking and solubilization-induced artifacts (e.g., epitope masking). Cleavage Under Targets and Release Under Nuclease (CUT&RUN) is a recently developed epigenomic alternative method to ChIP, offering advantages designed to overcome limitations of the ChIP method. Despite its advantages, it is not always straightforward which technique is most suitable for the job at hand. This chapter aims to provide an in-depth guide in performing CUT&RUN.

Indexed as

Epigenesis, GeneticEpigenomicsGene Expression Regulation, NeoplasticNeoplasmsChromatin ImmunoprecipitationHumansChIPCUT&RUNEpigenetic modifications

Identifiers

PMID40553286

DOI10.1038/s41587-021-00869-9

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