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

Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Genetic Screens02:46

Genetic Screens

Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing  genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which result in visible changes...
RNA Interference01:23

RNA Interference

RNA interference (RNAi) is a process in which a small non-coding RNA molecule blocks the post-transcriptional expression of a gene by binding to its messenger RNA (mRNA) and preventing the protein from being translated.
This process occurs naturally in cells, often through the activity of genomically-encoded microRNAs. Researchers can take advantage of this mechanism by introducing synthetic RNAs to deactivate specific genes for research or therapeutic purposes. For example, RNAi could be used...
RNA Interference01:23

RNA Interference

RNA interference (RNAi) is a process in which a small non-coding RNA molecule blocks the post-transcriptional expression of a gene by binding to its messenger RNA (mRNA) and preventing the protein from being translated.
This process occurs naturally in cells, often through the activity of genomically-encoded microRNAs. Researchers can take advantage of this mechanism by introducing synthetic RNAs to deactivate specific genes for research or therapeutic purposes. For example, RNAi could be used...
Protein-protein Interfaces02:04

Protein-protein Interfaces

Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a polypeptide...

You might also read

Related Articles

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

Sort by
Same author

Analysis and visualization of expression patterns with fuzzy sets as FlowSets.

NAR genomics and bioinformatics·2026
Same author

Divergent granulopoiesis at extramedullary sites safeguards antibacterial host defense.

Science immunology·2026
Same author

Immunothrombolytic monocyte-neutrophil axes dominate the single-cell landscape of human thrombosis and correlate with thrombus resolution.

Immunity·2025
Same author

Resident and recruited macrophages differentially contribute to cardiac healing after myocardial ischemia.

eLife·2024
Same author

Multiomic analyses uncover immunological signatures in acute and chronic coronary syndromes.

Nature medicine·2024
Same author

Peripheral priming induces plastic transcriptomic and proteomic responses in circulating neutrophils required for pathogen containment.

Science advances·2024

Related Experiment Video

Updated: May 30, 2026

RNA-Associated Chromatin DNA-DNA Interaction Method
11:01

RNA-Associated Chromatin DNA-DNA Interaction Method

Published on: April 30, 2026

Contextual analysis of RNAi-based functional screens using interaction networks.

Orland Gonzalez1, Ralf Zimmer

  • 1Institut für Informatik, Ludwig-Maximilians-Universität München, 80333 München, Germany. gonzalez@bio.ifi.lmu.de

Bioinformatics (Oxford, England)
|August 13, 2011
PubMed
Summary

This study introduces a novel co-clustering method for analyzing RNA interference (RNAi) functional screens. The approach identifies host factors for hepatitis C virus (HCV) infection, revealing new biological insights and potential therapeutic targets.

More Related Videos

In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions
10:27

In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions

Published on: October 21, 2022

Related Experiment Videos

Last Updated: May 30, 2026

RNA-Associated Chromatin DNA-DNA Interaction Method
11:01

RNA-Associated Chromatin DNA-DNA Interaction Method

Published on: April 30, 2026

In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions
10:27

In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions

Published on: October 21, 2022

Area of Science:

  • Bioinformatics
  • Systems Biology
  • Virology

Background:

  • High-throughput data analysis is crucial for understanding complex biological systems.
  • Existing methods primarily focus on expression data, leaving other high-throughput data types underexplored.
  • Identifying host factors for viral infections is key to developing antiviral strategies.

Purpose of the Study:

  • To develop a novel co-clustering method for the exploratory analysis of large-scale RNAi-based functional screens.
  • To apply this method to identify host factors involved in hepatitis C virus (HCV) infection.
  • To generate new biological hypotheses regarding host-pathogen interactions.

Main Methods:

  • Development of a co-clustering algorithm tailored for RNAi screening data.
  • Application of the method to a genome-scale RNAi screen for HCV host factors.
  • Exploratory data analysis to identify enriched cellular modules and functional relationships.

Main Results:

  • The co-clustering approach successfully identified known cellular modules associated with HCV infection.
  • New candidate host factors and biological hypotheses regarding their roles were uncovered.
  • Analysis suggested HCV utilizes the endosomal pathway and ESCRT-III complex for viral assembly and release, consistent with recent findings.

Conclusions:

  • The proposed co-clustering method is effective for exploratory analysis of large-scale RNAi screens.
  • This approach can reveal novel host-pathogen interactions and advance our understanding of viral mechanisms.
  • The findings provide a foundation for further investigation into HCV-host interactions and potential therapeutic interventions.