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

Spreading of Chromatin Modifications

Spreading of Chromatin Modifications

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 is an enzyme that can...

Duplication of Chromatin Structure

Duplication of Chromatin Structure

The process of chromosome duplication during cell division requires genome-wide disruption and re-assembly of chromatin. The chromatin structure must be accurately inherited, reassembled, and maintained in the daughter cells to ensure lineage propagation.
The basic unit of the chromatin is the nucleosome, consisting of DNA wrapped around octameric histone proteins and short stretches of linker DNA separating individual nucleosomes. The histone proteins within the nucleosome have their...

Forces Acting on Chromosomes

Forces Acting on Chromosomes

During mitosis, chromosome movements occur through the interplay of multiple piconewton level forces. In prometaphase, these forces help in chromosome assembly or congression at the equatorial plane, eventually leading to their alignment at the metaphase plate. The forces acting on the chromosomes are space and time-dependent; therefore, they vary with the position of the chromosomes as the cell progresses through mitosis.
Microtubules and motor proteins exert two types of forces on...

Forces Acting on Chromosomes

Forces Acting on Chromosomes

During mitosis, chromosome movements occur through the interplay of multiple piconewton level forces. In prometaphase, these forces help in chromosome assembly or congression at the equatorial plane, eventually leading to their alignment at the metaphase plate. The forces acting on the chromosomes are space and time-dependent; therefore, they vary with the position of the chromosomes as the cell progresses through mitosis.
Microtubules and motor proteins exert two types of forces on...

Euchromatin

Euchromatin

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...

Euchromatin

Euchromatin

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...

You might also read

Related Articles

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

Sort by

Same author

Spectral Graph Entropy of Chromatin: A von Neumann Framework for Multiscale Polymer Organization from Hi-C.

The journal of physical chemistry. B·2026

Same author

An experimentally-informed polymer model reveals high resolution organization of genomic loci.

Nature communications·2026

Same author

The role of nucleotide opening dynamics in facilitated target search by DNA-repair proteins.

Biochimica et biophysica acta. Gene regulatory mechanisms·2024

Same author

The environmentally-regulated interplay between local three-dimensional chromatin organisation and transcription of proVWX in E. coli.

Nature communications·2023

Same author

Superstructure Detection in Nucleosome Distribution Shows Common Pattern within a Chromosome and within the Genome.

Life (Basel, Switzerland)·2022

Same author

Inter-nucleosomal potentials from nucleosomal positioning data.

The European physical journal. E, Soft matter·2022

Search research articles

Related Experiment Video

Updated: May 14, 2026

A Method to Study de novo Formation of Chromatin Domains

A Method to Study de novo Formation of Chromatin Domains

Published on: August 23, 2019

Dynamic simulation of active/inactive chromatin domains.

Jens Odenheimer¹, Gregor Kreth, Dieter W Heermann

¹Institut für Theoretische Physik, Universität Heidelberg, Philosophenweg 19, D-69120 Heidelberg, Germany.

Journal of Biological Physics

|January 25, 2013

Summary

This study models chromatin compaction, showing that 8-20 attractive segments per 1 Mbp domain form 300-800 nm rosettes. Rosette size is mainly determined by segment number, not length.

Keywords:

chromatin structure condensing agents modeling molecular dynamics rosette structure simulation virtual microscopy

More Related Videos

Imaging Replicative Domains in Ultrastructurally Preserved Chromatin by Electron Tomography

Imaging Replicative Domains in Ultrastructurally Preserved Chromatin by Electron Tomography

Published on: May 20, 2022

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: May 14, 2026

A Method to Study de novo Formation of Chromatin Domains

A Method to Study de novo Formation of Chromatin Domains

Published on: August 23, 2019

Imaging Replicative Domains in Ultrastructurally Preserved Chromatin by Electron Tomography

Imaging Replicative Domains in Ultrastructurally Preserved Chromatin by Electron Tomography

Published on: May 20, 2022

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:

Molecular Biology
Genetics
Biophysics

Background:

The 30 nm chromatin fiber undergoes complex compaction into higher-order structures.
Understanding these higher-order structures is crucial for gene regulation and genome stability.

Purpose of the Study:

To propose a computational model for chromatin fiber compactification.
To investigate the relationship between attractive segments and the resulting rosette structure size.

Main Methods:

Modeling condensing agents as effective attractive potentials on chromatin chain segments.
Simulating the formation of 1 Mbp rosettes from a linear chromatin chain.
Analyzing the impact of the number and length of attractive segments on rosette diameter.

Main Results:

The formation of 1 Mbp rosettes from linear chains was successfully modeled.
8-20 attractive segments per 1 Mbp domain resulted in rosette diameters of 300-800 nm.
Rosette size was found to be relatively insensitive to the length of the attractive segments.

Conclusions:

The proposed model effectively simulates chromatin higher-order structure formation.
The number of attractive segments is a key determinant of rosette size in chromatin compaction.
This work provides insights into the physical principles governing genome organization.