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

Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

1.6K
The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the...
1.6K
Regulation of Expression Occurs at Multiple Steps02:24

Regulation of Expression Occurs at Multiple Steps

27.4K
Gene expression can be regulated at almost every step from gene to protein. Transcription is the step that is most commonly regulated. This involves the binding of proteins to short regulatory sequences on the DNA. This association can either promote or inhibit the transcription of a gene associated with the respective sequence.
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...
27.4K
Regulation of Expression Occurs at Multiple Steps02:24

Regulation of Expression Occurs at Multiple Steps

4.3K
4.3K
Interactions Between Signaling Pathways01:19

Interactions Between Signaling Pathways

8.0K
Signaling cascades usually lack linearity. Multiple pathways interact and regulate one another, allowing cells to integrate and respond to diverse environmental stimuli.
Convergence and divergence, and cross-talk between signaling pathways
Two distinct signaling pathways can converge on a single functional unit, which may either be a single protein or a complex of proteins. The response is either functionally distinct or synergistic between the two pathways but different from the response...
8.0K
Global Regulatory Systems01:28

Global Regulatory Systems

922
Global regulatory systems in bacteria enable rapid and coordinated responses to environmental changes by integrating sensory inputs with gene expression, ensuring efficient adaptation to fluctuating conditions. Key global regulatory mechanisms include regulons, two-component systems, sigma factors, and secondary messengers.Regulons and Global RegulatorsA regulon is a collection of genes and operons controlled by a common global regulator. These regulators enable bacteria to prioritize resource...
922
Covalently Linked Protein Regulators02:04

Covalently Linked Protein Regulators

2.1K
2.1K

You might also read

Related Articles

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

Sort by
Same author

MOSAIC: MOtif Set with mAximal InfluenCe on network.

IEEE transactions on computational biology and bioinformatics·2026
Same author

STORM: spatial transcriptomics optimization by resolution via matrix factorization.

Briefings in bioinformatics·2026
Same author

Microbiome responses to anthelmintic treatment depend on pre-treatment helminth infection status in young Ethiopian children.

Communications medicine·2026
Same author

SPACT: A clustering-driven multi-modal framework for survival prediction using genomic and histopathology data.

Medical image analysis·2026
Same author

Differential causal networks highlight sex-based differences in human tissues.

Briefings in bioinformatics·2025
Same author

A multidimensional perspective on Poria cocos, an ancient fungal traditional Chinese medicine.

Journal of ethnopharmacology·2025

Related Experiment Video

Updated: Apr 12, 2026

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
10:44

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

2.7K

Hierarchical decomposition of dynamically evolving regulatory networks.

Ahmet Ay1, Dihong Gong2, Tamer Kahveci3

  • 1Departments of Biology and Mathematics, Colgate University, Hamilton, 13346, NY, USA. aay@colgate.edu.

BMC Bioinformatics
|May 16, 2015
PubMed
Summary

We introduce D-HIDEN, a novel method for analyzing dynamic gene regulatory networks. It efficiently determines gene hierarchy in evolving networks, outperforming existing approaches in speed and accuracy.

More Related Videos

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
07:28

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

3.7K
A Multilayer Microfluidic Platform for the Conduction of Prolonged Cell-Free Gene Expression
11:23

A Multilayer Microfluidic Platform for the Conduction of Prolonged Cell-Free Gene Expression

Published on: October 6, 2019

10.9K

Related Experiment Videos

Last Updated: Apr 12, 2026

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
10:44

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

2.7K
JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
07:28

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

3.7K
A Multilayer Microfluidic Platform for the Conduction of Prolonged Cell-Free Gene Expression
11:23

A Multilayer Microfluidic Platform for the Conduction of Prolonged Cell-Free Gene Expression

Published on: October 6, 2019

10.9K

Area of Science:

  • Systems Biology
  • Computational Biology
  • Genomics

Background:

  • Gene regulatory networks (GRNs) govern cellular functions through complex gene interactions.
  • Understanding gene hierarchy within GRNs is crucial for deciphering biological processes.
  • Dynamic changes in GRN topology present a significant challenge for hierarchy determination.

Purpose of the Study:

  • To develop a computational method for identifying gene hierarchy in dynamic gene regulatory networks.
  • To address the challenge of evolving network topologies in GRN analysis.

Main Methods:

  • Introduced D-HIDEN (Dynamic-HIerarchical DEcomposition of Networks), a novel algorithm.
  • D-HIDEN adaptively updates gene hierarchy based on interaction wiring changes.
  • Focuses computational effort on nodes with potential hierarchy shifts, avoiding recomputation.

Main Results:

  • D-HIDEN significantly outperforms existing hierarchical decomposition methods.
  • Demonstrated superior performance in terms of running time and accuracy on synthetic and real GRNs.
  • Showcased robustness against dynamic hierarchy alterations.

Conclusions:

  • D-HIDEN offers an efficient and accurate solution for analyzing dynamic GRNs.
  • The method successfully reconstructs hierarchy in human gene regulatory networks.
  • Paves the way for improved understanding of dynamic biological processes governed by gene regulation.