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

Integrated Chronic In Vivo and In Vitro Screens Uncover NFIL3 as a Driver of T-cell Dysfunction.

Cancer discovery·2026

Same author

Comprehensive profiling of chromatin occupancy dynamics through the cell cycle.

Nucleic acids research·2026

Same author

Genome-wide nucleosome and transcription factor responses to genetic perturbations reveal chromatin-mediated mechanisms of transcriptional regulation.

Genome research·2025

Same author

Kit<sup>lo</sup> hematopoietic stem cells exhibit distinct lymphoid-primed chromatin landscapes that enhance thymic reconstitution.

Nature communications·2025

Same author

Opposing Functions of Distinct Regulatory T Cell Subsets in Colorectal Cancer.

bioRxiv : the preprint server for biology·2025

Same author

Genome-wide nucleosome and transcription factor responses to genetic perturbations reveal chromatin-mediated mechanisms of transcriptional regulation.

bioRxiv : the preprint server for biology·2024

Same journal

Region-aware bridge modeling enables interpretable mesoscale representation of spatial transcriptomic tissue sections.

Bioinformatics advances·2026

Same journal

Microbiome differential abundance methodologies to detect relevant taxa associated with chemotherapy toxicity rate in colorectal cancer.

Bioinformatics advances·2026

Same journal

maldipickr dereplicates microbial MALDI-TOF spectra to facilitate multiplexed isolation.

Bioinformatics advances·2026

Same journal

RAM-MSA: an anytime memory-bounded method for exact multiple sequence alignment using path finding.

Bioinformatics advances·2026

Same journal

Interpretable machine learning for low-sample multi-omics: a case study of ferret vaccine response.

Bioinformatics advances·2026

Same journal

DeepTaxa: a hybrid CNN-BERT framework for 16S rRNA taxonomic classification.

Bioinformatics advances·2026

See all related articles

Search research articles

Related Experiment Video

Updated: May 9, 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

Inferring differential protein binding from time-series chromatin accessibility data.

Sneha Mitra¹, Alexander J Hartemink^1,2

¹Department of Computer Science, Duke University, Durham, NC 27708-0129, United States.

Bioinformatics Advances

|April 29, 2025

Summary

This summary is machine-generated.

DynaCOP analyzes chromatin accessibility data to reveal dynamic changes in transcription factor binding and nucleosome positioning. This method helps understand how epigenomic changes impact gene expression under stress conditions.

More Related Videos

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Published on: November 13, 2017

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

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

Published on: October 2, 2017

Related Experiment Videos

Last Updated: May 9, 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

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq

Published on: November 13, 2017

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

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

Published on: October 2, 2017

Area of Science:

Genomics
Epigenetics
Molecular Biology

Background:

The epigenomic landscape dynamically changes, influencing gene expression.
Chromatin accessibility data, like MNase-seq, offer insights into this landscape.
Analyzing multiple datasets reveals dynamic chromatin occupancy changes.

Purpose of the Study:

Introduce DynaCOP, a novel method for analyzing dynamic chromatin occupancy.
Identify differentially binding transcription factors and changes in nucleosome occupancy/positioning.
Investigate chromatin changes in yeast under cadmium stress.

Main Methods:

DynaCOP processes multiple chromatin occupancy profiles.
Generates nucleosome-guided difference profiles.
Applies DynaCOP to time-series MNase-seq data.

Main Results:

DynaCOP successfully identifies differential transcription factor binding.
Reveals significant changes in nucleosome occupancy and positioning.
Observed chromatin changes correlate strongly with transcriptional changes in yeast under cadmium stress.

Conclusions:

DynaCOP is an effective tool for studying dynamic epigenomic changes.
Provides insights into stress-induced transcriptional regulation.
Highlights the link between chromatin dynamics and gene expression alterations.