Mammalian Micro-C-XL

Nils Krietenstein; Oliver J Rando

doi:10.1007/978-1-0716-2140-0_17

Mammalian Micro-C-XL

Methods Mol Biol. 2022:2458:321-332. doi: 10.1007/978-1-0716-2140-0_17.

Authors

Nils Krietenstein¹, Oliver J Rando²

Affiliations

¹ The Novo Nordisk Center for Protein Research (CPR), Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark. nils.krietenstein@cpr.ku.dk.
² Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA, USA. Oliver.rando@umassmed.edu.

PMID: 35103975
DOI: 10.1007/978-1-0716-2140-0_17

Abstract

Chromosome Conformation Capture (3C) methods are a family of sequencing-based assays to measure the three-dimensional structure of genomes, with Hi-C as the most prominent method in widespread use. The Micro-C-XL protocol is technical variant that improves the resolution and signal-to-noise ratio of the Hi-C protocol and therefore offers enhanced detection of chromatin features such as chromosome loops and fine-grained resolution of topologically associated domains. Here we describe a detailed step-by-step protocol for Micro-C-XL in mammalian cells.

Keywords: Chromatin fiber; Chromosome conformation capture (3C); Chromosome loops; Genome architecture; Hi-C; MNase; Nucleosome; TADs.

MeSH terms

Animals
Chromatin* / genetics
Chromosomes* / genetics
Genome
Mammals / genetics
Molecular Conformation

Substances

Chromatin