Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

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...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Extracellular vesicles as biomarkers of disease progression and therapeutic response in patients with spinal muscular atrophy.

Molecular therapy. Advances·2026

Same author

An oncostatin M receptor and chloride intracellular channel 1 crosstalk drives key oncogenic pathways in glioblastoma.

Signal transduction and targeted therapy·2026

Same author

Atomic elementary flux modes explain the steady state flow of metabolites in large-scale flux networks.

Cell reports methods·2026

Same author

Lymphocyte-derived cholinergic circuits modulate germinal center output and B cell activation.

Nature immunology·2026

Same author

Regenerative Index reveals declining muscle regeneration in paediatric patients with Duchenne muscular dystrophy.

bioRxiv : the preprint server for biology·2026

Same author

An OSMR-CLIC1 cross talk drives key oncogenic pathways in glioblastoma.

bioRxiv : the preprint server for biology·2025

Same journal

High-throughput measurements of protein domain functions using magnetic separation.

Nature protocols·2026

Same journal

Inducing physiological polarity and performing gene editing using CRISPR-Cas9 in human trophoblast organoids.

Nature protocols·2026

Same journal

Photocatalytic low-temperature defluorination of PTFE.

Nature protocols·2026

Same journal

Multimodal imaging and quantification of lanthanide chelate-labeled micro- and nanoplastics in plants.

Nature protocols·2026

Same journal

Facilitating structure-based drug discovery with an artificial intelligence-driven virtual screening platform.

Nature protocols·2026

Same journal

Yeast nuclei-mediated precise delivery of synthetic megabase-scale human DNA into mammalian embryos.

Nature protocols·2026

See all related articles

Search research articles

Related Experiment Video

Updated: May 9, 2026

TChIP-Seq: Cell-Type-Specific Epigenome Profiling

TChIP-Seq: Cell-Type-Specific Epigenome Profiling

Published on: January 23, 2019

Chromatin tandem affinity purification sequencing.

Vahab D Soleimani¹, Gareth A Palidwor, Parameswaran Ramachandran

¹Sprott Centre for Stem Cell Research, Ottawa Hospital Research Institute, Ottawa, Ontario, Canada.

Nature Protocols

|July 13, 2013

Summary

This summary is machine-generated.

Chromatin tandem affinity purification (ChTAP) offers a robust alternative to ChIP-seq for mapping protein-DNA interactions. This method streamlines analysis, enabling direct comparisons of transcription factor binding across diverse cell types.

More Related Videos

Chromatin Interaction Analysis with Paired-End Tag Sequencing (ChIA-PET) for Mapping Chromatin Interactions and Understanding Transcription Regulation

Chromatin Interaction Analysis with Paired-End Tag Sequencing (ChIA-PET) for Mapping Chromatin Interactions and Understanding Transcription Regulation

Published on: April 30, 2012

ATAC-Seq Optimization for Cancer Epigenetics Research

ATAC-Seq Optimization for Cancer Epigenetics Research

Published on: June 30, 2022

Related Experiment Videos

Last Updated: May 9, 2026

TChIP-Seq: Cell-Type-Specific Epigenome Profiling

TChIP-Seq: Cell-Type-Specific Epigenome Profiling

Published on: January 23, 2019

Chromatin Interaction Analysis with Paired-End Tag Sequencing (ChIA-PET) for Mapping Chromatin Interactions and Understanding Transcription Regulation

Chromatin Interaction Analysis with Paired-End Tag Sequencing (ChIA-PET) for Mapping Chromatin Interactions and Understanding Transcription Regulation

Published on: April 30, 2012

ATAC-Seq Optimization for Cancer Epigenetics Research

ATAC-Seq Optimization for Cancer Epigenetics Research

Published on: June 30, 2022

Area of Science:

Molecular Biology
Genomics
Epigenetics

Background:

Chromatin immunoprecipitation coupled with ultra-high-throughput sequencing (ChIP-seq) is a standard technique for identifying protein-DNA interactions.
The reliance on ChIP-grade antibodies for ChIP-seq presents challenges, including high variability due to antibody affinity and cross-reactivity, limiting its widespread application.
Existing methods often lack direct comparability between different proteins and straightforward background assessment.

Purpose of the Study:

To develop an effective alternative to ChIP-seq for mapping protein-DNA interactions.
To establish a method that allows direct comparison of binding affinities between different transcription factors.
To enable rapid, genome-wide mapping of multiple DNA-binding proteins across various cell types with reduced variability.

Main Methods:

Development of chromatin tandem affinity purification (ChTAP) utilizing standardized affinity tags and reagents.
Application of ChTAP coupled with sequencing (ChTAP-seq) for genome-wide binding analysis.
ChTAP protocol optimized for completion within 3-4 days, from chromatin cross-linking to DNA purification.

Main Results:

ChTAP provides a direct comparison of binding between different transcription factors by using identical affinity tags and reagents.
The method allows for direct assessment of background noise in control experiments.
ChTAP-seq successfully maps genome-wide binding of multiple DNA-binding proteins efficiently and across diverse cell types.

Conclusions:

Chromatin tandem affinity purification (ChTAP) is a powerful and effective alternative to ChIP-seq for mapping protein-DNA interactions.
ChTAP-seq overcomes limitations of traditional ChIP-seq by enabling direct comparisons and reducing experimental variability.
This technique facilitates rapid, reliable, and comparative genome-wide binding analysis of multiple proteins in various cellular contexts.