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

Association of Cumulative Proton Pump Inhibitor Use with Prostate Cancer Risk and Outcomes: A Population-Based Cohort Study.

Cancer research communications·2026

Same author

Dissecting and directing pathology foundation models.

bioRxiv : the preprint server for biology·2026

Same author

Detection and classification of lymphoma from cell-free methylome data.

NPJ precision oncology·2026

Same author

Mesenchymal drift: A convergent framework for the hallmarks of aging.

Cell·2026

Same author

MYC serine 62 phosphorylation promotes its association with DNA double-strand breaks to facilitate repair and cell survival under genotoxic stress.

Genes & development·2026

Same author

Segzoo: a turnkey system that summarizes genome annotations.

Bioinformatics (Oxford, England)·2026

Same journal

Integrated lipidomic and transcriptomic profiling of the host response in human malaria.

Genome biology·2026

Same journal

Centromeric satellite expansion drives genome evolution in the snowy owl.

Genome biology·2026

Same journal

Mapping the landscape of allele-specific expression in porcine genomes.

Genome biology·2026

Same journal

Genomic sequence evolution underlying human neocortical interareal diversification.

Genome biology·2026

Same journal

Regulatory mechanisms driven by functional 3'-UTR variants in alcohol use disorder and related traits.

Genome biology·2026

Same journal

A longitudinal single-nucleus transcriptomic atlas of bovine placentation reveals dynamic cellular hierarchies and regulatory programs.

Genome biology·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Mar 21, 2026

A Semiautomated ChIP-Seq Procedure for Large-scale Epigenetic Studies

A Semiautomated ChIP-Seq Procedure for Large-scale Epigenetic Studies

Published on: August 13, 2020

ChromNet: Learning the human chromatin network from all ENCODE ChIP-seq data.

Scott M Lundberg¹, William B Tu^2,3, Brian Raught^2,3

¹Department of Computer Science and Engineering, University of Washington, Seattle, WA, USA.

|May 4, 2016

Summary

This summary is machine-generated.

ChromNet infers cellular regulatory interactions using a novel statistical method. This chromatin network analysis accurately predicts known interactions and reveals new ones, like MYC-HCFC1.

More Related Videos

Automating ChIP-seq Experiments to Generate Epigenetic Profiles on 10,000 HeLa Cells

Automating ChIP-seq Experiments to Generate Epigenetic Profiles on 10,000 HeLa Cells

Published on: December 10, 2014

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues

Published on: April 5, 2018

Related Experiment Videos

Last Updated: Mar 21, 2026

A Semiautomated ChIP-Seq Procedure for Large-scale Epigenetic Studies

A Semiautomated ChIP-Seq Procedure for Large-scale Epigenetic Studies

Published on: August 13, 2020

Automating ChIP-seq Experiments to Generate Epigenetic Profiles on 10,000 HeLa Cells

Automating ChIP-seq Experiments to Generate Epigenetic Profiles on 10,000 HeLa Cells

Published on: December 10, 2014

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues

Published on: April 5, 2018

Area of Science:

Genomics
Computational Biology
Epigenetics

Background:

Cellular epigenomes result from complex interactions between regulatory factors like transcription factors and histone modifications.
These interactions are co-localized at specific genomic regions, forming a regulatory network.

Purpose of the Study:

To develop a novel statistical method, ChromNet, for inferring the chromatin network of regulatory factor interactions.
To analyze the ENCODE Project's ChIP-seq data to build and validate this network.

Main Methods:

Developed ChromNet, a statistical method to infer conditional-dependence relationships from ChIP-seq data.
Applied ChromNet to 1451 ChIP-seq datasets from the ENCODE Project.
Experimentally validated predicted interactions, including MYC-HCFC1.

Main Results:

ChromNet successfully inferred a chromatin network from large-scale ChIP-seq data.
The method demonstrated superior performance in identifying known physical interactions compared to existing approaches.
A novel interaction, MYC-HCFC1, was identified and experimentally validated.

Conclusions:

ChromNet is an effective tool for mapping regulatory interactions within the epigenome.
The inferred chromatin network provides insights into gene regulation.
The study highlights the utility of computational network inference for biological discovery.