Journal
/
Genetics
/
Formaldehyde-assisted Isolation of Regulatory Elements to Measure Chromatin Accessibility in Mammalian Cells
JoVE Journal
Genetics
This content is Free Access.
JoVE Journal Genetics
Formaldehyde-assisted Isolation of Regulatory Elements to Measure Chromatin Accessibility in Mammalian Cells

Formaldehyde-assisted Isolation of Regulatory Elements to Measure Chromatin Accessibility in Mammalian Cells

DOI:
10.3791/57272-v

•

08:08 min

•

April 02, 2018

•

, , , ,
1Department of Oncohematology and Genetics. Institute of Biomedicine of Seville (IBiS),University Hospital Virgen del Rocío, 2Institute of Biochemistry, Medical Faculty, Friedrichstrasse 24, Member of the German Center for Lung Research,Justus-Liebig-University

Chapters

  • 00:04Title
  • 01:03Formaldehyde Crosslinking and Cell Harvesting
  • 02:18Cell Lysis and Chromatin Fragmentation
  • 03:25De-crosslinking of Control DNA
  • 04:04Phenol: Chloroform Purification of DNA
  • 06:44Results: Chromatin Accessibility Quantified
  • 07:29Conclusion

Summary

Automatic Translation

Automatic Translation

The plasticity of nuclear architecture is controlled by dynamic epigenetic mechanisms including non-coding RNAs, DNA methylation, nucleosome repositioning as well as histone composition and modification. Here we describe a Formaldehyde-Assisted Isolation of Regulatory Elements (FAIRE) protocol which allows the determination of chromatin accessibility in a reproducible, inexpensive, and straightforward manner.

Tags

Chromatin AccessibilityFormaldehyde-assisted IsolationRegulatory ElementsMammalian CellsDNA-protein Cross-linkingChromatin RemodelingFAIRESonicationChromatin Fragmentation

Article

Embed

ADD TO PLAYLIST

Usage Statistics

Related Videos

Sequential Salt Extractions for the Analysis of Bulk Chromatin Binding Properties of Chromatin Modifying Complexes

Selection-dependent and Independent Generation of CRISPR/Cas9-mediated Gene Knockouts in Mammalian Cells

Chromatin Immunoprecipitation (ChIP) in Mouse T-cell Lines

Retroviral Scanning: Mapping MLV Integration Sites to Define Cell-specific Regulatory Regions

Chromatin Immunoprecipitation (ChIP) Protocol for Low-abundance Embryonic Samples

Adaptation of Hybridization Capture of Chromatin-associated Proteins for Proteomics to Mammalian Cells

A Simple, Rapid, and Quantitative Assay to Measure Repair of DNA-protein Crosslinks on Plasmids Transfected into Mammalian Cells

CRISPR-Mediated Reorganization of Chromatin Loop Structure

Chromatin Immunoprecipitation Assay Using Micrococcal Nucleases in Mammalian Cells

Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins

Read Article