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

Operon Model01:23

Operon Model

2.0K
The operon model represents a fundamental mechanism of gene regulation in prokaryotes, enabling coordinated expression of genes involved in related metabolic or functional pathways. Operons consist of structural genes, a promoter, and an operator, with transcription regulated by repressors, activators, and small effector molecules.Structure and Function of OperonsAn operon is a cluster of structural genes transcribed together under the control of a single promoter. The promoter region...
2.0K
Operons02:09

Operons

55.4K
Prokaryotes can control gene expression through operons—DNA sequences consisting of regulatory elements and clustered, functionally related protein-coding genes. Operons use a single promoter sequence to initiate transcription of a gene cluster (i.e., a group of structural genes) into a single mRNA molecule. The terminator sequence ends transcription. An operator sequence, located between the promoter and structural genes, prohibits the operon’s transcriptional activity if bound by...
55.4K
Operons02:09

Operons

19.3K
19.3K
Repressible Operon: trp Operon01:21

Repressible Operon: trp Operon

2.3K
The trp operon in Escherichia coli exemplifies a repressible operon. It regulates the synthesis of tryptophan through repressor-mediated transcriptional control and attenuation. This dual regulatory mechanism ensures tryptophan biosynthesis occurs only when needed, conserving cellular resources.Structure of the trp OperonThe trp operon consists of five structural genes (trpE, trpD, trpC, trpB, and trpA) that encode enzymes for tryptophan biosynthesis. These genes are transcribed as a single...
2.3K
Combinatorial Gene Control02:33

Combinatorial Gene Control

9.8K
Combinatorial gene control is the synergistic action of several transcriptional factors to regulate the expression of a single gene. The absence of one or more of these factors may lead to a significant difference in the level of gene expression or repression.
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
9.8K
Predicting Reaction Outcomes02:24

Predicting Reaction Outcomes

11.4K
Kinetics describes the rate and path by which a reaction occurs. In contrast, thermodynamics deals with state functions and describes the properties, behavior, and components of a system. It is not concerned with the path taken by the process and cannot address the rate at which a reaction occurs. Although it does provide information about what can happen during a reaction process, it does not describe the detailed steps of what appears on an atomic or a molecular level. On the other hand,...
11.4K

You might also read

Related Articles

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

Sort by
Same author

Investigating infection and clinical data to predict effective antibiotic therapy and monitor resistance trends.

International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases·2026
Same author

Transcriptomic rewiring of the JAK-STAT pathway in circulating CD4<sup>+</sup>CLA<sup>+</sup> and CD4<sup>+</sup> naïve T cells from patients with atopic dermatitis and psoriasis.

Frontiers in immunology·2026
Same author

MUUMI: an R package for statistical and network-based meta-analysis for multi-omics data integration.

BMC bioinformatics·2026
Same author

Extracellular Matrix Origin Directs Morphogenesis and Gene Regulation in Bioengineered Human Skin.

Advanced healthcare materials·2026
Same author

Review on Predictive Models and Integration Strategies for Holistic Impact Assessment of Chemicals and Materials.

Environmental science & technology·2026
Same author

Unmasking metabolic disruptors: The NEMESIS project's quest for Novel Biomarkers, Evidence on Adverse Effects, and Efficient Methodologies.

Open research Europe·2026

Related Experiment Video

Updated: Mar 19, 2026

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
08:35

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

6.5K

CONDOP: an R package for CONdition-Dependent Operon Predictions.

Vittorio Fortino1, Roberto Tagliaferri2, Dario Greco1

  • 1Institute of Biotechnology, University of Helsinki, Helsinki, Finland.

Bioinformatics (Oxford, England)
|June 15, 2016
PubMed
Summary

This study introduces the CONDOP R package for predicting prokaryotic operon structures using RNA sequencing data. It enables condition-dependent operon predictions and enhances understanding of transcriptional regulation.

More Related Videos

DNA-affinity-purified Chip DAP-chip Method to Determine Gene Targets for Bacterial Two component Regulatory Systems
12:24

DNA-affinity-purified Chip DAP-chip Method to Determine Gene Targets for Bacterial Two component Regulatory Systems

Published on: July 21, 2014

17.4K
Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes
07:55

Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes

Published on: May 31, 2011

10.8K

Related Experiment Videos

Last Updated: Mar 19, 2026

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
08:35

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

6.5K
DNA-affinity-purified Chip DAP-chip Method to Determine Gene Targets for Bacterial Two component Regulatory Systems
12:24

DNA-affinity-purified Chip DAP-chip Method to Determine Gene Targets for Bacterial Two component Regulatory Systems

Published on: July 21, 2014

17.4K
Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes
07:55

Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes

Published on: May 31, 2011

10.8K

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • High-throughput RNA sequencing (RNA-seq) is increasingly used for analyzing prokaryotic genomes.
  • Predicting dynamic operon structures is crucial for understanding gene regulation.
  • Existing methods may not fully capture condition-dependent operon organization.

Purpose of the Study:

  • To develop and implement a novel computational method for predicting condition-dependent operon structures.
  • To provide an R package (CONDOP) for accessible RNA-seq data analysis related to operon organization.
  • To facilitate deeper insights into transcriptional regulation by highlighting operon dynamics.

Main Methods:

  • Utilizing transcriptomic features extracted from RNA-seq data.
  • Developing ensemble classifiers for operon prediction.
  • Implementing the method in the R programming language.

Main Results:

  • The CONDOP package offers a novel approach to operon prediction using RNA-seq data.
  • It enables the identification of condition-dependent operon structures.
  • The package provides a user-friendly interface for analyzing transcriptional regulation.

Conclusions:

  • The CONDOP package enhances RNA-seq data analysis for prokaryotic genomics.
  • It offers a valuable tool for scientists studying transcriptional regulation and operon organization.
  • The method contributes to a better understanding of dynamic gene expression in prokaryotes.