Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

RNA-seq

RNA-seq

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...

You might also read

Related Articles

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

Sort by

Same author

Exercise Resistance in Obese Male NZO Mice Manifests as Local Muscle Remodelling Without Glycaemic Improvements.

Diabetes, obesity & metabolism·2026

Same author

Integrative multi-omics analysis of growth plate regulation underlying body size in miniature pigs.

Communications biology·2026

Same author

Transcriptomic responses to repeated exposure of human C3A liver spheroids to polystyrene nanoplastics.

Archives of toxicology·2026

Same author

Downregulation of <i>Trpv4</i> and <i>Klf2</i> in brain microvessels is associated with the progression of neurovascular dysfunction and cognitive impairment in a model of heart failure with preserved ejection fraction.

Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism·2026

Same author

Discrimination of Steatotic and Non-Steatotic Chemicals Through Transcriptome Analysis in Primary Human Hepatocytes.

International journal of molecular sciences·2026

Same author

Reduced NR2F6 expression reshapes the VPA-induced transcriptome in human hepatocytes and increases lipid accumulation.

Toxicology·2026

Search research articles

Related Experiment Video

Updated: Jul 28, 2025

Author Spotlight: Cost-Effective Transcriptomic Drug Screening - Unlocking New Targets

Author Spotlight: Cost-Effective Transcriptomic Drug Screening - Unlocking New Targets

Published on: February 23, 2024

IsoTools: a flexible workflow for long-read transcriptome sequencing analysis.

Matthias Lienhard¹, Twan van den Beucken², Bernd Timmermann³

¹Department of Computational Biology, Max Planck Institute for Molecular Genetics, 14195 Berlin, Germany.

Bioinformatics (Oxford, England)

|June 2, 2023

Summary

This summary is machine-generated.

Long-read transcriptome sequencing (LRTS) offers new insights into alternative splicing. The IsoTools framework aids in analyzing complex splicing patterns from LRTS data, outperforming short-read sequencing.

More Related Videos

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Published on: December 13, 2024

RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level

RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level

Published on: May 19, 2019

Related Experiment Videos

Last Updated: Jul 28, 2025

Author Spotlight: Cost-Effective Transcriptomic Drug Screening - Unlocking New Targets

Author Spotlight: Cost-Effective Transcriptomic Drug Screening - Unlocking New Targets

Published on: February 23, 2024

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Author Spotlight: Investigating the Role of Repetitive DNA Misregulation in Cancer Initiation and Immunotherapy Resistance

Published on: December 13, 2024

RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level

RNA Next-Generation Sequencing and a Bioinformatics Pipeline to Identify Expressed LINE-1s at the Locus-Specific Level

Published on: May 19, 2019

Area of Science:

Genomics
Computational Biology

Background:

Alternative splicing is a complex biological process crucial for gene expression.
Understanding alternative splicing requires advanced computational tools for analyzing transcriptomic data.
Long-read transcriptome sequencing (LRTS) offers potential for deeper insights into splicing variations.

Purpose of the Study:

To introduce IsoTools, a flexible Python-based framework for LRTS analysis.
To provide tools for transcriptome reconstruction, quantification, and identification of alternative splicing events.
To develop a statistical method for detecting differential splicing events.

Main Methods:

Developed IsoTools, a Python framework for LRTS data analysis.
Integrated graph-based methods for identifying alternative splicing events.
Implemented a beta-binomial distribution-based statistical approach for differential splicing detection.

Main Results:

IsoTools successfully reconstructed and quantified transcripts from PacBio LRTS data.
The framework identified complex and differential alternative splicing events in human hepatocytes.
LRTS analysis using IsoTools provided more comprehensive insights into splicing patterns compared to short-read RNA-seq.

Conclusions:

LRTS, coupled with the IsoTools framework, enhances the understanding of complex alternative splicing.
IsoTools offers a versatile solution for transcriptome analysis, particularly for identifying differential splicing.
The developed methods provide valuable insights into gene expression regulation through alternative splicing.