Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Spreading of Chromatin Modifications02:25

Spreading of Chromatin Modifications

8.1K
The histone proteins in the nucleosomes are post-translationally modified (PTM) to increase or decrease access to DNA. The commonly observed PTMs are methylation, acetylation, phosphorylation, and ubiquitination of lysine amino acids in the histone H3 tail region. These histone modifications have specific meaning for the cell. Hence, they are called "histone code". The protein complex involved in histone modification is termed as "reader-writer" complex.
Writers
The writer...
8.1K
Chromatin Position Affects Gene Expression02:35

Chromatin Position Affects Gene Expression

23.2K
Chromatin is the massive complex of DNA and proteins packaged inside the nucleus. The complexity of chromatin folding and how it is packaged inside the nucleus greatly influences  access to genetic information. Generally, the nucleus' periphery is considered transcriptionally repressive, while the cell's interior is considered a transcriptionally active area. 
Topologically Associated Domains (TADs)
The 3-dimensional positioning of chromatin in the nucleus influences the...
23.2K
Histone Modification02:32

Histone Modification

12.9K
The histone proteins have a flexible N-terminal tail extending out from the nucleosome. These histone tails are often subjected to post-translational modifications such as acetylation, methylation, phosphorylation, and ubiquitination. Particular combinations of these modifications form “histone codes” that influence the chromatin folding and tissue-specific gene expression.
Acetylation
The enzyme histone acetyltransferase adds acetyl group to the histones. Another enzyme, histone...
12.9K
Heterochromatin02:38

Heterochromatin

9.1K
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions that take up more dye are called heterochromatin. Heterochromatin is further classified into two forms – constitutive heterochromatin and facultative heterochromatin.
Constitutive heterochromatin: It is a highly compact region of chromatin that is mostly concentrated in the centromere and telomere. Unlike euchromatin, the amino acid at...
9.1K
Chromatin Packaging02:21

Chromatin Packaging

15.0K
Each human somatic cell contains 6 billion base-pairs of DNA. Each base-pair is 0.34 nm long, which means that each diploid cell contains a staggering 2 meters of DNA. How is such a long DNA strand packed inside a nucleus measuring only 10 - 20 microns in diameter? 
The chromatin
In combination with specialized DNA binding protein called Histones, the DNA double helix forms a compact DNA: protein complex called chromatin. The chromatin itself is further compacted into higher-order...
15.0K
Euchromatin01:01

Euchromatin

6.7K
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions take up more dye, appearing darker, while the less-compact areas take up less dye and appear lighter. Based on the compaction level, chromatins are classified into two primary forms – euchromatin and heterochromatin.
Euchromatin is the less dense region of the chromatin and stains lighter. Euchromatin contains histone H3 extensively...
6.7K

You might also read

Related Articles

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

Sort by
Same author

A Unified Platform for Direct Alkynylation from Alcohols via Deoxygenative Metallaphotoredox Catalysis.

Journal of the American Chemical Society·2026
Same author

High-Precision Intrinsic Interactome Elucidation of Chimeric Antigen Receptors via Photocatalytic Micromapping (μMap-CAR).

Journal of the American Chemical Society·2026
Same author

Genetic rescue of disrupted synaptic protein interaction network dynamics following SYNGAP1 reactivation.

Molecular & cellular proteomics : MCP·2026
Same author

Host metabolism can produce many indoles and phenols independently of the microbiome.

Nature metabolism·2026
Same author

Piecewise Stereoselective Assembly of Multisubstituted Alkenes.

Journal of the American Chemical Society·2026
Same author

Oxyalkylation of Alkenes via Triple Radical Sorting.

Journal of the American Chemical Society·2026

Related Experiment Video

Updated: May 17, 2025

The ChroP Approach Combines ChIP and Mass Spectrometry to Dissect Locus-specific Proteomic Landscapes of Chromatin
24:02

The ChroP Approach Combines ChIP and Mass Spectrometry to Dissect Locus-specific Proteomic Landscapes of Chromatin

Published on: April 11, 2014

18.1K

Mesoscale proximity labeling to study macro changes to chromatin occupancy.

Cameron J Douglas1,2, Preston Samowitz1,2, Feifei Tong1

  • 1Wertheim UF Scripps, Jupiter, Florida, 33458, United States.

Biorxiv : the Preprint Server for Biology
|March 31, 2025
PubMed
Summary

MesoMap enables mesoscale proximity labeling to reveal global biomolecular interactions and drug effects on gene expression. This system offers new insights into how HDAC inhibitors and SR-1815 impact cellular systems and disease-linked genes.

More Related Videos

Author Spotlight: Getting an A with the 3Cs: Chromosome Conformation Capture for Undergraduates
09:13

Author Spotlight: Getting an A with the 3Cs: Chromosome Conformation Capture for Undergraduates

Published on: May 12, 2023

3.1K
Capturing Chromosome Conformation Across Length Scales
10:15

Capturing Chromosome Conformation Across Length Scales

Published on: January 20, 2023

3.3K

Related Experiment Videos

Last Updated: May 17, 2025

The ChroP Approach Combines ChIP and Mass Spectrometry to Dissect Locus-specific Proteomic Landscapes of Chromatin
24:02

The ChroP Approach Combines ChIP and Mass Spectrometry to Dissect Locus-specific Proteomic Landscapes of Chromatin

Published on: April 11, 2014

18.1K
Author Spotlight: Getting an A with the 3Cs: Chromosome Conformation Capture for Undergraduates
09:13

Author Spotlight: Getting an A with the 3Cs: Chromosome Conformation Capture for Undergraduates

Published on: May 12, 2023

3.1K
Capturing Chromosome Conformation Across Length Scales
10:15

Capturing Chromosome Conformation Across Length Scales

Published on: January 20, 2023

3.3K

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Systems Biology

Background:

  • Traditional proximity labeling studies single molecules, limiting understanding of complex cellular systems.
  • Investigating global biomolecular interactions is crucial for deciphering cellular mechanisms and drug actions.

Purpose of the Study:

  • To develop a mesoscale proximity labeling system (MesoMap) for studying global biomolecular interactions.
  • To investigate ligand-induced changes in cellular systems and chromatin mobility.
  • To understand the mechanisms of HDAC inhibitors and SR-1815 on gene expression.

Main Methods:

  • Development of MesoMap, a system using nanoscale proximity labeling catalysts inserted into chromatin.
  • Application of MesoMap to study the effects of HDAC inhibitors on gene expression.
  • Utilizing MesoMap to analyze the impact of SR-1815 on Syngap1 gene expression and kinase activity.

Main Results:

  • MesoMap provided new insights into how HDAC inhibitors regulate gene expression.
  • SR-1815 was found to regulate Syngap1 gene expression by inhibiting kinases linked to neurological disorders and cancer.
  • The system precisely mapped global chromatin mobility, revealing drug-induced transcriptional dynamics.

Conclusions:

  • MesoMap enables deciphering ligand-induced changes in global biomolecular interactions at the mesoscale.
  • The study elucidates mechanisms of gene regulation by HDAC inhibitors and SR-1815.
  • MesoMap is a powerful tool for understanding drug-induced transcriptional dynamics in health and disease.