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

You might also read

Related Articles

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

Sort by
Same author

Irreversible Electroporation of Spine Tumors in a Canine Model: Tumoricidal Effects and Neural Toxicity.

Journal of vascular and interventional radiology : JVIR·2026
Same author

Direct Synthesis of 1,3-Dien-2-yl Esters from α-Allenols and Carboranyl Carboxylic Acids.

The Journal of organic chemistry·2026
Same author

Real-time quantification during indocyanine green fluorescent-guided surgery in canine soft tissue sarcomas and mast cell tumors.

Scientific reports·2026
Same author

Nodal lymphatic mapping in 22 dogs bearing solid malignant tumors and enlarged regional lymph nodes: A descriptive study (2022-2025).

Veterinary journal (London, England : 1997)·2026
Same author

Open Air Organophotocatalyzed Ring-Closing Cascade Trifluoromethylation of Dienes inside a Supramolecular Gel.

The Journal of organic chemistry·2026
Same author

Photocatalytic remote C(sp<sup>3</sup>)-H alkylation of long-chain alkenes: A tandem multicomponent approach <i>via</i> radical translocation.

Chemical science·2026
Same journal

Isolation of Mesenchymal Stem Cell-Derived Extracellular Vesicles.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Modeling Melanoma Immune Surveillance by CAR-T Cells in Human Skin Organoids.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Stepwise Optimization of a Matrigel-Based In Vitro Angiogenesis Assay for Reproducible and Quantifiable 2D-Tube Formation Using HUVECs.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Quantifying Mechanical Properties of Fresh Ovarian Tissue with Optical Brillouin Microscopy.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

3D Chromatin Architecture During Early Development: New Methods and New Findings.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Metabolic Plasticity in Embryogenesis Throughout the Lens of NAD<sup></sup>.

Methods in molecular biology (Clifton, N.J.)·2026
See all related articles

Related Experiment Video

Updated: Oct 23, 2025

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.
22:27

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Published on: May 6, 2010

410.1K

Visualizing and Annotating Hi-C Data.

Koustav Pal1, Francesco Ferrari2,3

  • 1IFOM-The FIRC Institute of Molecular Oncology, Milan, Italy. koustav.pal@ifom.eu.

Methods in Molecular Biology (Clifton, N.J.)
|August 20, 2021
PubMed
Summary
This summary is machine-generated.

This study presents advanced data visualization methods for epigenomics research, focusing on complex Hi-C contact matrices. The techniques integrate genomic data and annotations for pattern discovery, aiding biological insights.

Keywords:
BioinformaticsChromatin architectureData visualizationHi-CTopological domains

More Related Videos

Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C
09:32

Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C

Published on: October 14, 2022

3.9K
Capturing Chromosome Conformation Across Length Scales
10:15

Capturing Chromosome Conformation Across Length Scales

Published on: January 20, 2023

3.8K

Related Experiment Videos

Last Updated: Oct 23, 2025

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.
22:27

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Published on: May 6, 2010

410.1K
Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C
09:32

Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C

Published on: October 14, 2022

3.9K
Capturing Chromosome Conformation Across Length Scales
10:15

Capturing Chromosome Conformation Across Length Scales

Published on: January 20, 2023

3.8K

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Epigenomics research necessitates integrating diverse datasets for biological insights.
  • Effective data visualization is crucial for identifying patterns in genomic data.
  • Visualizing Hi-C contact matrices is challenging due to the 3D nature of genomic interactions.

Purpose of the Study:

  • To illustrate sophisticated plotting methods for Hi-C data combined with other genomic and epigenomic annotations.
  • To provide customizable and detailed examples for researchers.
  • To facilitate the analysis of high-resolution Hi-C datasets.

Main Methods:

  • Utilizing a Bioconductor package for handling high-resolution Hi-C data.
  • Developing advanced visualization techniques to display Hi-C contact matrices alongside genomic annotations.
  • Providing detailed explanations and customizable code examples.

Main Results:

  • Demonstration of sophisticated plots integrating Hi-C data with genomic and epigenomic annotations.
  • Availability of detailed, customizable code examples for researchers.
  • Facilitation of pattern identification in complex epigenomic datasets.

Conclusions:

  • Advanced visualization tools are essential for interpreting complex epigenomic data, particularly Hi-C matrices.
  • The presented methods and examples enable researchers to effectively visualize and analyze their own high-resolution Hi-C datasets.
  • These techniques enhance the extraction of biologically relevant information from integrated genomic datasets.