Unit

UNIT 21.11 Mapping Chromatin Interactions by Chromosome Conformation Capture

  1. Adriana Miele,
  2. Nele Gheldof,
  3. Tomoko M. Tabuchi,
  4. Josée Dostie,
  5. Job Dekker

Published Online: 1 MAY 2006

DOI: 10.1002/0471142727.mb2111s74

Current Protocols in Molecular Biology

Current Protocols in Molecular Biology

How to Cite

Miele, A., Gheldof, N., Tabuchi, T. M., Dostie, J. and Dekker, J. 2006. Mapping Chromatin Interactions by Chromosome Conformation Capture. Current Protocols in Molecular Biology. 74:21.11:21.11.1–21.11.20.

Author Information

  1. University of Massachusetts Medical School, Worcester, Massachusetts

Publication History

  1. Published Online: 1 MAY 2006
  2. Published Print: APR 2006

Abstract

Chromosome conformation capture (3C) is one of the only techniques that allows for analysis of an intermediate level of chromosome structure ranging from a few to hundreds of kilobases, a level most relevant for gene regulation. The 3C technique is used to detect physical interactions between sequence elements that are located on the same or on different chromosomes. For instance, physical interactions between distant enhancers and target genes can be measured. The 3C assay uses formaldehyde cross-linking to trap connections between chromatin segments that can, after a number of manipulations, be detected by PCR. This unit describes detailed protocols for performing 3C with yeast Saccharomyces cerevisiae and mammalian cells.

Keywords:

  • DNA;
  • chromatin;
  • Saccharomyces cerevisiae;
  • mammalian cells;
  • interaction