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

13.0K
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...
13.0K
Spreading of Chromatin Modifications02:25

Spreading of Chromatin Modifications

10.1K
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...
10.1K
Chromatin Position Affects Gene Expression02:35

Chromatin Position Affects Gene Expression

25.4K
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...
25.4K
Histone Modification02:32

Histone Modification

18.0K
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...
18.0K
Heterochromatin02:38

Heterochromatin

19.2K
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...
19.2K
Chromatin Modification in iPS Cells01:32

Chromatin Modification in iPS Cells

2.3K
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...
2.3K

You might also read

Related Articles

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

Sort by
Same author

Refining the Definition for "Low Risk" in Pulmonary Arterial Hypertension: Time to Reduce Morbidity and Mortality.

JACC. Heart failure·2026
Same author

Reply to Blette and Kawut: Surrogate Endpoints are Risky Business in Pulmonary Arterial Hypertension.

American journal of respiratory and critical care medicine·2026
Same author

Water-Stable Hydrazone-Linked Porous Organic Cage-Enhanced Nanoparticle Brachytherapy for the Treatment of Glioblastoma.

Molecular pharmaceutics·2026
Same author

szKendall: spatial-structural-zero-aware dissimilarity measures for subtype discovery using single cell Hi-C data.

Nature communications·2026
Same author

PHF23-Related Prognostic Signature Modulates Immune Microenvironment and Promotes Tumor Malignancy in Glioma.

International journal of molecular sciences·2026
Same author

Study of risk assessment scores as surrogate endpoints in pulmonary arterial hypertension trials.

American journal of respiratory and critical care medicine·2026
Same journal

Balanced mediated pathway detection in genomic data.

Statistical applications in genetics and molecular biology·2026
Same journal

Annealed variational mixtures for disease subtyping and biomarker discovery.

Statistical applications in genetics and molecular biology·2026
Same journal

Performance of the permutation test approach with base calling errors for detecting changes in variant allele frequencies in ctDNA for a single patient.

Statistical applications in genetics and molecular biology·2026
Same journal

BLOG: Bayesian longitudinal omics with group constraints.

Statistical applications in genetics and molecular biology·2026
Same journal

AI-driven risk prediction and categorization in cystic fibrosis leveraging AttentiveLSTM and Fox Wolf Optimizer.

Statistical applications in genetics and molecular biology·2026
Same journal

Perfect collinearity not created equal: measuring and visualizing the severity of multi-collinearity of modern omics data.

Statistical applications in genetics and molecular biology·2026
See all related articles

Related Experiment Video

Updated: Apr 19, 2026

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types
12:39

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

Published on: December 10, 2012

11.8K

A Bayesian mixture model for chromatin interaction data.

Liang Niu, Shili Lin

    Statistical Applications in Genetics and Molecular Biology
    |December 9, 2014
    PubMed
    Summary
    This summary is machine-generated.

    MC_DIST, a new Bayesian mixture model, accurately identifies true chromatin interactions from ChIA-PET data. This method improves upon existing models by reducing false positives in gene regulation studies.

    More Related Videos

    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

    11.0K
    Chromatin Interaction Analysis with Paired-End Tag Sequencing ChIA-PET for Mapping Chromatin Interactions and Understanding Transcription Regulation
    21:55

    Chromatin Interaction Analysis with Paired-End Tag Sequencing ChIA-PET for Mapping Chromatin Interactions and Understanding Transcription Regulation

    Published on: April 30, 2012

    31.4K

    Related Experiment Videos

    Last Updated: Apr 19, 2026

    A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types
    12:39

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

    Published on: December 10, 2012

    11.8K
    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

    11.0K
    Chromatin Interaction Analysis with Paired-End Tag Sequencing ChIA-PET for Mapping Chromatin Interactions and Understanding Transcription Regulation
    21:55

    Chromatin Interaction Analysis with Paired-End Tag Sequencing ChIA-PET for Mapping Chromatin Interactions and Understanding Transcription Regulation

    Published on: April 30, 2012

    31.4K

    Area of Science:

    • Genomics
    • Molecular Biology
    • Bioinformatics

    Background:

    • Chromatin interactions are crucial for gene regulation, particularly for disease-associated genes.
    • Chromatin interaction analysis by paired-end tag sequencing (ChIA-PET) detects these interactions genomewide.
    • ChIA-PET data can contain noise, making it challenging to distinguish true interactions from random pairings.

    Purpose of the Study:

    • To develop a robust statistical method for identifying true chromatin interactions from ChIA-PET data.
    • To improve the accuracy and reduce false positives in ChIA-PET analysis.

    Main Methods:

    • Proposed MC_DIST, a mixture modeling framework utilizing a Bayesian approach.
    • Incorporated protein binding site and gene promoter information to enhance model performance.
    • Evaluated the model using simulation studies and real ChIA-PET data.

    Main Results:

    • MC_DIST demonstrated superior performance compared to the hypergeometric model in simulation studies, showing better power and lower type I error rates.
    • Real data analysis revealed that MC_DIST identified potential chromatin interactions missed by the hypergeometric model.
    • The method effectively distinguishes true chromatin interactions from noise in ChIA-PET data.

    Conclusions:

    • MC_DIST provides a more accurate and reliable method for analyzing ChIA-PET data.
    • The Bayesian mixture modeling approach enhances the identification of functional chromatin interactions.
    • This method has significant implications for understanding gene regulation and disease mechanisms.