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

A specific stem cell program and CD112 immunological axis dysfunctions underpinning monosomy 7-associated myeloid neoplasms.

Signal transduction and targeted therapy·2026

Same author

A 3D morphogenetic blueprint for metastatic outgrowth in breast cancer.

Cell·2026

Same author

Editorial Expression of Concern: Rescue of Hippo coactivator YAP1 triggers DNA damage-induced apoptosis in hematological cancers.

Nature medicine·2026

Same author

RUNX2 cooperates with SREBP1 to rewire cancer metabolism and promote aggressiveness.

Journal of experimental & clinical cancer research : CR·2025

Same author

Secretory IgA amplification during immune checkpoint blockade enhances the control of tumor growth by enterotropic T cells.

Science advances·2025

Same author

Aquarius helicase facilitates HIV-1 integration into R-loop enriched genomic regions.

Nature microbiology·2025

Same journal

Isolation of Mesenchymal Stem Cell-Derived Extracellular Vesicles.

Methods in molecular biology (Clifton, N.J.)·2026

Same journal

Modeling Melanoma Immune Surveillance by CAR-T Cells in Human Skin Organoids.

Methods in molecular biology (Clifton, N.J.)·2026

Same journal

Stepwise Optimization of a Matrigel-Based In Vitro Angiogenesis Assay for Reproducible and Quantifiable 2D-Tube Formation Using HUVECs.

Methods in molecular biology (Clifton, N.J.)·2026

Same journal

Quantifying Mechanical Properties of Fresh Ovarian Tissue with Optical Brillouin Microscopy.

Methods in molecular biology (Clifton, N.J.)·2026

Same journal

3D Chromatin Architecture During Early Development: New Methods and New Findings.

Methods in molecular biology (Clifton, N.J.)·2026

Same journal

Metabolic Plasticity in Embryogenesis Throughout the Lens of NAD<sup></sup>.

Methods in molecular biology (Clifton, N.J.)·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Oct 23, 2025

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

Published on: December 10, 2012

Analysis of HiChIP Data.

Martina Dori¹, Mattia Forcato²

¹Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy. martina.dori@unimore.it.

Methods in Molecular Biology (Clifton, N.J.)

|August 20, 2021

Summary

This summary is machine-generated.

HiChIP is a novel chromatin interaction analysis method. This study details a computational pipeline for analyzing HiChIP data, focusing on cohesin-mediated interactions in human stem cells after heat shock.

Keywords:

Bioinformatics Chromatin interactions Differential interactions HiChIP

More Related Videos

Exploring Biomolecular Interaction Between the Molecular Chaperone Hsp90 and Its Client Protein Kinase Cdc37 using Field-Effect Biosensing Technology

Exploring Biomolecular Interaction Between the Molecular Chaperone Hsp90 and Its Client Protein Kinase Cdc37 using Field-Effect Biosensing Technology

Published on: March 31, 2022

A Practical and Novel Method to Extract Genomic DNA from Blood Collection Kits for Plasma Protein Preservation

A Practical and Novel Method to Extract Genomic DNA from Blood Collection Kits for Plasma Protein Preservation

Published on: May 18, 2013

Related Experiment Videos

Last Updated: Oct 23, 2025

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

Published on: December 10, 2012

Exploring Biomolecular Interaction Between the Molecular Chaperone Hsp90 and Its Client Protein Kinase Cdc37 using Field-Effect Biosensing Technology

Exploring Biomolecular Interaction Between the Molecular Chaperone Hsp90 and Its Client Protein Kinase Cdc37 using Field-Effect Biosensing Technology

Published on: March 31, 2022

A Practical and Novel Method to Extract Genomic DNA from Blood Collection Kits for Plasma Protein Preservation

A Practical and Novel Method to Extract Genomic DNA from Blood Collection Kits for Plasma Protein Preservation

Published on: May 18, 2013

Area of Science:

Genomics
Molecular Biology
Biotechnology

Background:

Chromatin interactions are crucial for gene regulation.
HiChIP combines Hi-C and ChIP for protein-specific interaction analysis.
Existing methods require optimization for HiChIP-specific biases.

Purpose of the Study:

To present a computational pipeline for HiChIP data analysis.
To investigate changes in cohesin-mediated chromatin interactions.
To analyze HiChIP data from human embryonic stem cells before and after heat shock.

Main Methods:

Developed a computational pipeline for HiChIP data preprocessing.
Applied the pipeline to analyze Rad21 (cohesin) interactions in human embryonic stem cells.
Utilized in situ Hi-C and ChIP techniques.
Incorporated methods for identifying and visualizing differential chromatin loops.

Main Results:

Successfully processed raw HiChIP data.
Identified specific chromatin interactions mediated by Rad21.
Evaluated alterations in chromatin structure following heat-shock treatment.
Visualized differential loops, highlighting treatment-induced changes.

Conclusions:

The described pipeline enables robust analysis of HiChIP data.
HiChIP can reveal dynamic changes in protein-mediated chromatin interactions.
This approach is valuable for studying gene regulation under different cellular conditions.