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

Chromatin Immunoprecipitation- ChIP02:36

Chromatin Immunoprecipitation- ChIP

11.1K
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...
11.1K
Heterochromatin02:38

Heterochromatin

12.5K
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...
12.5K
Chromatin Modification in iPS Cells01:32

Chromatin Modification in iPS Cells

1.6K
Chromatin modification alters gene expression; therefore, scientists can add histone-modifying enzymes, histone variants, and chromatin remodeling complexes to somatic cells to aid reprogramming into pluripotent stem (iPS) cells.
Compact chromatin makes reprogramming difficult. Enzymes, such as histone demethylases and acetyltransferases, are often added during reprogramming to loosen the chromatin, making the DNA more accessible to transcription factors. Molecules that inhibit histone...
1.6K
Spreading of Chromatin Modifications02:25

Spreading of Chromatin Modifications

8.3K
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...
8.3K
Euchromatin01:01

Euchromatin

6.9K
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...
6.9K

You might also read

Related Articles

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

Sort by
Same author

Menin-dependent megakaryocyte proliferation and fibrosis in myeloproliferative neoplasms.

Cancer cell·2026
Same author

Single-cell DNA methylation analysis uncovers epigenetic pathways in the transformation of MDS to AML.

Leukemia·2026
Same author

Outcomes of patients with higher-risk myelodysplastic syndromes/neoplasms treated with hypomethylating agents + venetoclax-an analysis from the International Consortium for MDS (icMDS) VALIDATE database.

Blood cancer journal·2026
Same author

Real-world, multi-omics validation of the clinical relevance of molecular taxonomy for myelodysplastic syndromes (MDS).

HemaSphere·2026
Same author

Longitudinal changes in DNA methylation in IDH-mutant glioma fuel disease progression through altered cell state differentiation.

Nature genetics·2026
Same author

L1CAM signaling through planar cell polarity drives SOX2 expression and lung adenocarcinoma metastasis.

Nature communications·2026

Related Experiment Video

Updated: Jun 26, 2025

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq
09:08

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

Published on: November 13, 2017

18.0K

Mapping genotypes to chromatin accessibility profiles in single cells.

Franco Izzo1,2,3,4, Robert M Myers5,6,7,8, Saravanan Ganesan5,6,7

  • 1New York Genome Center, New York, NY, USA. franco.izzo@mssm.edu.

Nature
|May 8, 2024
PubMed
Summary
This summary is machine-generated.

Somatic mutations alter chromatin accessibility, impacting cell differentiation. A new method, GoT-ChA, reveals JAK2V617F mutations rewire epigenetics in blood stem cells, driving inflammation and altered cell fates.

More Related Videos

Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq
06:24

Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq

Published on: March 12, 2021

3.6K
An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues
10:41

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

Published on: April 5, 2018

10.4K

Related Experiment Videos

Last Updated: Jun 26, 2025

Mapping Genome-wide Accessible Chromatin in Primary Human T Lymphocytes by ATAC-Seq
09:08

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

Published on: November 13, 2017

18.0K
Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq
06:24

Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq

Published on: March 12, 2021

3.6K
An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues
10:41

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

Published on: April 5, 2018

10.4K

Area of Science:

  • Epigenetics and Genomics
  • Hematopoiesis
  • Cancer Biology

Background:

  • Chromatin accessibility changes are crucial for cell differentiation.
  • Somatic mutations can disrupt these patterns, leading to abnormal cell growth.
  • Studying mutation impacts on epigenomes in human samples is difficult due to mixed cell types.

Purpose of the Study:

  • To develop a method for analyzing how somatic mutations affect epigenetic landscapes in human clonal outgrowths.
  • To investigate the impact of JAK2V617F mutations on chromatin accessibility in myeloproliferative neoplasms.

Main Methods:

  • Developed genotyping of targeted loci with single-cell chromatin accessibility (GoT-ChA) to link genotypes with chromatin accessibility at single-cell resolution.
  • Applied GoT-ChA to CD34+ cells from patients with JAK2V617F-mutated myeloproliferative neoplasms.
  • Expanded the platform (DOGMA-seq) to include RNA expression and cell-surface protein analysis.

Main Results:

  • Identified cell-intrinsic and cell-state-specific epigenetic shifts in JAK2V617F-mutant hematopoietic precursors.
  • Observed pro-inflammatory signatures in hematopoietic stem cells and a profibrotic inflammatory landscape in megakaryocytic progenitors.
  • Demonstrated that JAK2V617F mutation causes cell-intrinsic, cell type-specific epigenetic rewiring.

Conclusions:

  • Somatic mutations, like JAK2V617F, induce significant epigenetic alterations in a cell-specific manner.
  • These epigenetic changes influence inflammation and cell differentiation trajectories.
  • The GoT-ChA platform offers a powerful tool for studying somatic mutations and epigenetics in various contexts.