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

Conservation of Protein Domains Over Different Proteins02:26

Conservation of Protein Domains Over Different Proteins

14.6K
Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...
14.6K
Areas Within Irregular Boundaries01:26

Areas Within Irregular Boundaries

385
Calculating areas within irregular boundaries, such as along rivers or curved roads, is crucial in various fields, including surveying, engineering, and environmental management. Surveyors often begin by creating a traverse, a connected series of straight lines approximating the area's boundary. The coordinates of each traverse point are essential for calculating the enclosed area. The double meridian distance formula is a widely used technique for this purpose. This method utilizes the...
385
Contact Angle01:13

Contact Angle

21.1K
When a solid is dipped inside a liquid, the liquid surface becomes curved near the contact. For some solid–liquid interfaces, the liquid is pulled up along the solid, while for others, the liquid surface is convex or depressed near the solid surface. This phenomenon can be explained using the concept of cohesive and adhesive forces.
The adhesive force is the molecular force between molecules of different materials, that is, between the molecules of the solid and the liquid. The cohesive...
21.1K
Contact-dependent Signaling01:19

Contact-dependent Signaling

47.5K
Contact-dependent signaling, as the name suggests, requires that communicating cells be in direct contact with each other. This is achieved either through receptor-ligand interactions or by specialized cytoplasmic channels that allow the flow of small molecules between cells. In animal cells, channels called gap junctions facilitate contact-dependent signaling in certain tissues, whereas, plasmodesmata perform a similar function in plants.
Gap Junctions
In animal cells, gap junctions are formed...
47.5K
Electrostatic Boundary Conditions01:16

Electrostatic Boundary Conditions

970
Consider an external electric field propagating through a homogeneous medium. When the electric field crosses the surface boundary of the medium, it undergoes a discontinuity. The electric field can be resolved into normal and tangential components. The amount by which the field changes at any boundary is given by the difference between the field components above and below the surface boundary.
The surface integral of an electric field is given by Gauss's law in integral form and is related to...
970
Magnetostatic Boundary Conditions01:28

Magnetostatic Boundary Conditions

1.7K
An electric field suffers a discontinuity at a surface charge. Similarly, a magnetic field is discontinuous at a surface current. The perpendicular component of a magnetic field is continuous across the interface of two magnetic mediums. In contrast, its parallel component, perpendicular to the current, is discontinuous by the amount equal to the product of the vacuum permeability and the surface current. Like the scalar potential in electrostatics, the vector potential is also continuous...
1.7K

You might also read

Related Articles

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

Sort by
Same author

UFM1 suppresses VSMCs phenotypic switching and attenuates atherosclerosis by inhibiting AKT phosphorylation.

Biochemical pharmacology·2026
Same author

Surface engineering of SnO<sub>2</sub> for improved perovskite/SnO<sub>2</sub> photodetectors.

RSC advances·2026
Same author

Engineering a Quantitative Organ-on-a-Chip Platform for Myogenic Mechanobiology.

Bioengineering (Basel, Switzerland)·2026
Same author

Accurate prediction of cohesin and RNA Polymerase II-associated chromatin interactions using convolutional neural networks.

Nucleic acids research·2026
Same author

A comprehensive predictive model study: ultrasound viscosity imaging in thyroid nodules.

Postgraduate medical journal·2026
Same author

Subsequent vertebral fracture after percutaneous vertebroplasty or kyphoplasty in postmenopausal women with osteoporotic vertebral compression fracture.

Frontiers in endocrinology·2026

Related Experiment Video

Updated: Feb 5, 2026

Optimizing Magnetic Force Microscopy Resolution and Sensitivity to Visualize Nanoscale Magnetic Domains
07:42

Optimizing Magnetic Force Microscopy Resolution and Sensitivity to Visualize Nanoscale Magnetic Domains

Published on: July 20, 2022

3.4K

HiCDB: a sensitive and robust method for detecting contact domain boundaries.

Fengling Chen1, Guipeng Li1,2, Michael Q Zhang1,3,4

  • 1MOE Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Bioinformatics Division, BNRist, Department of Automation, Tsinghua University, Beijing 100084, China.

Nucleic Acids Research
|September 6, 2018
PubMed
Summary

Researchers developed HiCDB, a new method to identify contact domain boundaries (CDBs) in Hi-C maps. This tool improves accuracy in detecting CDBs, revealing their links to gene regulation and cell identity.

More Related Videos

A Sensitive Visual Method for the Detection of Hydrogen Sulfide Producing Bacteria
03:55

A Sensitive Visual Method for the Detection of Hydrogen Sulfide Producing Bacteria

Published on: June 27, 2022

4.2K
A Method to Study de novo Formation of Chromatin Domains
07:34

A Method to Study de novo Formation of Chromatin Domains

Published on: August 23, 2019

5.8K

Related Experiment Videos

Last Updated: Feb 5, 2026

Optimizing Magnetic Force Microscopy Resolution and Sensitivity to Visualize Nanoscale Magnetic Domains
07:42

Optimizing Magnetic Force Microscopy Resolution and Sensitivity to Visualize Nanoscale Magnetic Domains

Published on: July 20, 2022

3.4K
A Sensitive Visual Method for the Detection of Hydrogen Sulfide Producing Bacteria
03:55

A Sensitive Visual Method for the Detection of Hydrogen Sulfide Producing Bacteria

Published on: June 27, 2022

4.2K
A Method to Study de novo Formation of Chromatin Domains
07:34

A Method to Study de novo Formation of Chromatin Domains

Published on: August 23, 2019

5.8K

Area of Science:

  • Genomics
  • Epigenetics
  • Computational Biology

Background:

  • Contact domains are crucial for gene regulation and cell lineage commitment.
  • Current methods for identifying contact domain boundaries (CDBs) have limitations in accuracy and resolution.

Purpose of the Study:

  • To introduce HiCDB, a novel computational method for detecting CDBs on Hi-C maps.
  • To evaluate HiCDB's performance against existing state-of-the-art methods.
  • To investigate the epigenetic features and regulatory roles of identified CDBs.

Main Methods:

  • HiCDB utilizes a local relative insulation metric and a multi-scale aggregation approach.
  • The method was applied to Hi-C datasets at various resolutions.
  • Performance was compared with other established CDB detection tools.

Main Results:

  • HiCDB demonstrates enhanced sensitivity and specificity in CDB detection across different Hi-C resolutions.
  • Detected CDBs are enriched with architectural proteins and cell-type-specific transcription factor binding sites.
  • Cell-type-specific CDBs correlate with active regulatory signals and the activation of nearby cell identity genes.

Conclusions:

  • HiCDB provides a more accurate and sensitive approach for identifying contact domain boundaries.
  • CDBs play a significant role in cell-type-specific gene regulation and lineage commitment.
  • The method facilitates deeper understanding of the epigenetic landscape at domain boundaries.