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

Ribosome Profiling02:24

Ribosome Profiling

3.5K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
3.5K
RNA-seq03:21

RNA-seq

10.0K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
10.0K

You might also read

Related Articles

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

Sort by
Same author

Multi-modal data integration reveals functionally credible predictive biomarkers in ovarian cancer.

Genome medicine·2026
Same author

Real-time breath metabolomics to assess early response to CFTR modulators in adults with cystic fibrosis: An open-label proof-of-concept study.

Journal of cystic fibrosis : official journal of the European Cystic Fibrosis Society·2026
Same author

A new generic feline quality of life (FelQoL) questionnaire: part 2 - initial evaluation of clinical utility.

Journal of feline medicine and surgery·2026
Same author

A new generic feline quality of life (FelQoL) questionnaire: part 1 - development and validation.

Journal of feline medicine and surgery·2026
Same author

A descriptive case series of hepatotoxicity associated with CFTR modulators and possible relevance of pharmacogenetic polymorphisms in cystic fibrosis patients.

British journal of clinical pharmacology·2026
Same author

SPL84 and trikafta® exhibit comparable and additive effects in patient-derived HBE cells carrying the 3849+10kb C→T/F508del CFTR variants.

Journal of cystic fibrosis : official journal of the European Cystic Fibrosis Society·2026
Same journal

Oncostatin M orchestrates collective epithelial migration via HIF1A activation.

NPJ systems biology and applications·2026
Same journal

Identification of phillyrin as a PPAR-γ ligand through network pharmacology and molecular modeling.

NPJ systems biology and applications·2026
Same journal

Expanding the role of metabolism in whole plant models.

NPJ systems biology and applications·2026
Same journal

Modeling single nucleus microglia across species identifies immune pathways and therapeutic candidates in Alzheimer's disease.

NPJ systems biology and applications·2026
Same journal

Metabolic set theory: a generalized model of microbial interactions.

NPJ systems biology and applications·2026
Same journal

Gene prioritization across ancestries uncovers distinct molecular pathophysiology and therapeutic landscape in polycystic ovary syndrome.

NPJ systems biology and applications·2026
See all related articles

Related Experiment Video

Updated: Jul 5, 2025

Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice
07:07

Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice

Published on: January 7, 2019

6.2K

Representation and quantification of module activity from omics data with rROMA.

Matthieu Najm1,2,3, Matthieu Cornet1,2,3, Luca Albergante1,2,3

  • 1INSERM U900, 75428, Paris, France.

NPJ Systems Biology and Applications
|January 19, 2024
PubMed
Summary
This summary is machine-generated.

The new rROMA software package efficiently analyzes gene set activity from high-throughput biological data. It aids in understanding complex diseases like cystic fibrosis by identifying active signaling pathways and potential disease mechanisms.

More Related Videos

De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data
08:23

De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data

Published on: February 18, 2022

3.6K
Measuring mRNA Levels Over Time During the Yeast S. cerevisiae Hypoxic Response
09:45

Measuring mRNA Levels Over Time During the Yeast S. cerevisiae Hypoxic Response

Published on: August 10, 2017

8.3K

Related Experiment Videos

Last Updated: Jul 5, 2025

Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice
07:07

Lung microRNA Profiling Across the Estrous Cycle in Ozone-exposed Mice

Published on: January 7, 2019

6.2K
De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data
08:23

De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data

Published on: February 18, 2022

3.6K
Measuring mRNA Levels Over Time During the Yeast S. cerevisiae Hypoxic Response
09:45

Measuring mRNA Levels Over Time During the Yeast S. cerevisiae Hypoxic Response

Published on: August 10, 2017

8.3K

Area of Science:

  • Systems Biology
  • Bioinformatics
  • Genomics

Background:

  • High-throughput molecular data (transcriptomics, proteomics) offers insights into biological complexity.
  • Systems biology analysis shifts from individual gene expression to coordinated gene set activity.
  • Existing methods may lack speed and comprehensive analysis tools for gene set activity.

Purpose of the Study:

  • Introduce the rROMA software package for fast and accurate computation of gene set activity.
  • Enhance systems biology data analysis with improved algorithms and statistical/visualization tools.
  • Apply rROMA to identify disease mechanisms in cystic fibrosis using transcriptomic data.

Main Methods:

  • Developed rROMA, an open-source software package for gene set activity analysis.
  • Implemented improved calculation algorithms and statistical analysis functions.
  • Utilized publicly available transcriptomic datasets for application and validation.

Main Results:

  • rROMA accurately computes gene set activity, aiding in systems biology data interpretation.
  • Application to cystic fibrosis identified disease-related active signaling pathways.
  • The analysis highlighted a significant disease mechanism, a potential cell culture bias, and a novel gene of interest.

Conclusions:

  • rROMA provides a valuable tool for fast and accurate gene set activity analysis in systems biology.
  • The software facilitates the identification of biological mechanisms in complex diseases like cystic fibrosis.
  • rROMA's application revealed disease insights and suggested areas for further research, including potential experimental biases.