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

RNA-seq03:21

RNA-seq

12.6K
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...
12.6K
Ribosome Profiling02:24

Ribosome Profiling

4.3K
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...
4.3K

You might also read

Related Articles

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

Sort by
Same author

Non-destructive forensic identification and quantification of cocaine through sealed packaging using FT-NIR spectroscopy and hyperspectral imaging.

Analytica chimica acta·2026
Same author

Type I interferon-activated NK cells control polycythemia vera in vivo.

Blood·2026
Same author

TGF-β1 and TGF-β2 family members differentially modulate tumor initiation and invasiveness of primary liver cancer in a MMP14-dependent manner.

Carcinogenesis·2026
Same author

The MYB-related transcription factor MYPOP acts as a selective regulator of cancer cell growth.

Communications biology·2026
Same author

DoReMiTra: an R/Bioconductor data package for orchestrating the analysis of radiation transcriptomic studies.

Bioinformatics advances·2026
Same author

Target-site dynamics explain a large share of apparent microRNA differential expression.

RNA (New York, N.Y.)·2026
Same journal

STED: flexible cross-modal topic modeling infers cell-type-specific regulatory landscapes from bulk epigenomics.

Briefings in bioinformatics·2026
Same journal

A knowledge-guided deep learning framework for quantitative nucleic acid testing.

Briefings in bioinformatics·2026
Same journal

Optimal transport for label transfer in single-cell multi-omics integration.

Briefings in bioinformatics·2026
Same journal

Continuous multi-omics pathway enrichment analysis resolves hidden functional heterogeneity.

Briefings in bioinformatics·2026
Same journal

Evaluating completeness, coherence, and consistency of genome-scale function annotations.

Briefings in bioinformatics·2026
Same journal

Transformers for single-cell RNA sequencing: a survey.

Briefings in bioinformatics·2026
See all related articles

Related Experiment Video

Updated: Apr 8, 2026

Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes
05:07

Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes

Published on: November 7, 2025

535

Systematically evaluating interfaces for RNA-seq analysis from a life scientist perspective.

Alicia Poplawski, Federico Marini, Moritz Hess

    Briefings in Bioinformatics
    |June 26, 2015
    PubMed
    Summary
    This summary is machine-generated.

    User-friendly interfaces for RNA-sequencing (RNA-seq) data analysis exist but require careful selection. Evaluation of 29 tools found no single best option, highlighting the need for user-specific criteria and potential improvements for broader accessibility.

    Keywords:
    RNA-seqevaluationinterfacesystematic searchworkflow

    More Related Videos

    Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
    11:52

    Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

    Published on: August 4, 2016

    11.1K
    Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation
    12:54

    Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation

    Published on: March 7, 2018

    14.2K

    Related Experiment Videos

    Last Updated: Apr 8, 2026

    Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes
    05:07

    Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes

    Published on: November 7, 2025

    535
    Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
    11:52

    Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

    Published on: August 4, 2016

    11.1K
    Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation
    12:54

    Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation

    Published on: March 7, 2018

    14.2K

    Area of Science:

    • Genomics
    • Bioinformatics
    • Computational Biology

    Background:

    • RNA-sequencing (RNA-seq) is a standard method for gene expression measurement in various organisms.
    • Developing user-friendly tools is crucial for life scientists lacking command-line expertise.
    • Existing protocols for RNA-seq data processing and analysis are widely adopted.

    Purpose of the Study:

    • To systematically search and evaluate graphical user interfaces (GUIs) designed for RNA-seq data analysis.
    • To assess the extent to which these interfaces facilitate RNA-seq data analysis for non-expert users.
    • To identify strengths and weaknesses of popular RNA-seq analysis interfaces.

    Main Methods:

    • Conducted a systematic search to identify open-source RNA-seq analysis interfaces.
    • Evaluated six prominent interfaces based on criteria including configuration, documentation, usability, computational demand, and reporting.
    • Assessed the practical utility and challenges associated with using these interfaces.

    Main Results:

    • Identified 29 open-source RNA-seq analysis interfaces.
    • Found that no single interface excelled across all evaluation criteria (configuration, documentation, usability, computational demand, reporting).
    • Significant technical challenges were encountered during the evaluation process.

    Conclusions:

    • The choice of an RNA-seq analysis interface depends on individual user needs and priorities.
    • Current interfaces present technical hurdles that may limit their benefits over command-line tools for some users.
    • There is a clear need for improved interface design and implementation to enhance accessibility and usability in RNA-seq data analysis.