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

9.9K
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...
9.9K
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
Real Time RT-PCR02:57

Real Time RT-PCR

57.1K
Real-time reverse transcription-polymerase chain reaction, or Real-time RT-PCR, is an analytical tool used to determine the expression level of target genes. The method involves converting mRNA to complementary DNA with the help of an enzyme known as reverse transcriptase, followed by the PCR amplification of the cDNA. These two processes can be performed simultaneously in a single tube or separately as a two-step reaction.
The real-time quantification of the number of amplified products is...
57.1K

You might also read

Related Articles

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

Sort by
Same author

AtFusionDB: A Comprehensive Database of Fusion Transcripts in Model Plant Arabidopsis thaliana.

Methods in molecular biology (Clifton, N.J.)·2026
Same author

Validation of Plant Fusion Peptides Using Proteomics Data.

Methods in molecular biology (Clifton, N.J.)·2026
Same author

PFGPred: a stack ensemble classifier for the identification of fusion genes in plants.

DNA research : an international journal for rapid publication of reports on genes and genomes·2026
Same author

Uncovering the biosynthetic potential of Amycolatopsis: new insights into glycopeptide antibiotic and polyketide gene clusters.

Journal of applied microbiology·2026
Same author

<i>UBA1-CDK16</i>: A female-specific chimeric RNA emerging through evolution and involved in immune regulation.

Science advances·2026
Same author

The Intersection of AI and genomics in health and disease: Advancements and applications.

Progress in molecular biology and translational science·2026

Related Experiment Video

Updated: Jun 18, 2025

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

10.3K

A Protocol for the Detection of Fusion Transcripts Using RNA-Sequencing Data.

Fiza Hamid1, Simran Arora1, Pragya Chitkara1

  • 1Bioinformatics Laboratory, National Institute of Plant Genome Research (NIPGR), New Delhi, India.

Methods in Molecular Biology (Clifton, N.J.)
|July 27, 2024
PubMed
Summary

Fusion transcripts, novel genes formed by gene fusions, are crucial in cancer diagnosis and evolution. Next-generation sequencing and bioinformatics now enable efficient detection of these fusion transcripts.

Keywords:
Chimeric RNAsFusion geneFusion transcriptRNA-SeqTools

More Related Videos

Oncogenic Gene Fusion Detection Using Anchored Multiplex Polymerase Chain Reaction Followed by Next Generation Sequencing
09:49

Oncogenic Gene Fusion Detection Using Anchored Multiplex Polymerase Chain Reaction Followed by Next Generation Sequencing

Published on: July 5, 2019

9.5K
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

5.5K

Related Experiment Videos

Last Updated: Jun 18, 2025

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

10.3K
Oncogenic Gene Fusion Detection Using Anchored Multiplex Polymerase Chain Reaction Followed by Next Generation Sequencing
09:49

Oncogenic Gene Fusion Detection Using Anchored Multiplex Polymerase Chain Reaction Followed by Next Generation Sequencing

Published on: July 5, 2019

9.5K
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

5.5K

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Fusion transcripts result from gene or mRNA fusion, creating novel genes or chimeric transcripts.
  • Gene fusions serve as significant cancer biomarkers for diagnosis and therapeutic targeting.
  • Gene fusions also play a role in normal physiology, contributing to organismal adaptation and evolution.

Purpose of the Study:

  • To provide an overview of the computational protocol for detecting fusion transcripts.
  • To highlight the advantages of next-generation sequencing (NGS) technologies for fusion transcript detection.

Main Methods:

  • Review of traditional in vitro methods (FISH, PCR, RT-PCR, chromosome banding) for gene fusion detection.
  • Emphasis on high-throughput next-generation sequencing (NGS) technologies, including whole genome sequencing and RNA-Seq.
  • Application of bioinformatics tools for analyzing NGS data to identify fusion transcripts.

Main Results:

  • Traditional methods for gene fusion detection suffer from low resolution and throughput.
  • NGS technologies coupled with bioinformatics offer a feasible and high-throughput approach for detecting fusion transcripts.
  • Computational protocols are essential for analyzing large-scale sequencing datasets.

Conclusions:

  • Next-generation sequencing and bioinformatics have revolutionized the detection of fusion transcripts.
  • Computational methods are critical for identifying fusion transcripts from RNA-sequencing data.
  • Accurate detection of fusion transcripts has implications for cancer diagnostics, therapeutics, and understanding evolutionary processes.