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Chromatin Immunoprecipitation- ChIP

Chromatin Immunoprecipitation- ChIP

Chromatin immunoprecipitation, or ChIP, is an antibody-based technique used to identify sites on DNA that bind to transcription factors of interest or histone proteins. It also helps determine the type of histone modifications such as acetylation, phosphorylation, or methylation.
Types of ChIP
ChIP can be divided into two types - X-ChIP and N-ChIP. X-ChIP involves in vivo cross-linking of histones and regulatory proteins to DNA, fragmenting the DNA by sonication, and isolating the protein-DNA...

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Related Experiment Video

Updated: Nov 15, 2025

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

Published on: April 2, 2018

DNase I Chromatin Accessibility Analysis.

Brook S Nepon-Sixt¹, Mark G Alexandrow¹

¹Department of Molecular Oncology, Moffitt Cancer Center and Research Institute, 12902 Magnolia Drive, Tampa, FL 33612, USA.

|March 3, 2021

Summary

This summary is machine-generated.

This study introduces a new assay to measure DNA accessibility in human cells using DNase I and qPCR. This method helps understand how chromatin structure impacts essential cellular functions.

Keywords:

Chromatin access Chromatin conformation DNase I Lamin B2 Origin of DNA replication qPCR

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Last Updated: Nov 15, 2025

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

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Published on: April 2, 2018

Chromatin Immunoprecipitation Assay Using Micrococcal Nucleases in Mammalian Cells

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Generation of Native Chromatin Immunoprecipitation Sequencing Libraries for Nucleosome Density Analysis

Generation of Native Chromatin Immunoprecipitation Sequencing Libraries for Nucleosome Density Analysis

Published on: December 12, 2017

Area of Science:

Molecular Biology
Genomics
Cell Biology

Background:

Chromatin organizes DNA and regulates key cellular processes like replication and transcription.
Chromatin conformation (accessible or inaccessible) dictates genomic function.
Assessing chromatin accessibility is crucial for understanding genome regulation.

Purpose of the Study:

To develop and validate a novel assay for determining human genomic region accessibility.
To utilize DNase I nuclease activity and quantitative PCR (qPCR) to measure accessibility.
To investigate the molecular mechanisms governing chromatin accessibility and its impact on cellular functions.

Main Methods:

Development of a DNase I-based assay to assess chromatin accessibility.
Application of the assay to a specific human genomic region, the Lamin B2 origin of DNA replication.
Quantification of nuclease activity effects on qPCR signals from target DNA sites.

Main Results:

The assay successfully measures the accessibility of specific human genomic regions.
Demonstrated the utility of the assay in interrogating chromatin conformation.
Provided a method to link chromatin accessibility to cellular processes.

Conclusions:

The developed assay is a powerful tool for studying chromatin accessibility.
This method facilitates the investigation of molecular mechanisms regulating genome function.
Understanding chromatin accessibility is vital for comprehending DNA replication, repair, and transcription.