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
Next-generation Sequencing03:00

Next-generation Sequencing

88.7K
The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....
88.7K

You might also read

Related Articles

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

Sort by
Same author

Long non-coding RNA Carip loss alters parabrachial synapses and drives pain hypersensitivity.

Brain : a journal of neurology·2026
Same author

Chinese Immune Multi-Omics Atlas.

Science (New York, N.Y.)·2026
Same author

5' UTR <i>cis</i>-regulatory logic governs ribosome engagement on canonical and noncoding RNAs.

RNA (New York, N.Y.)·2025
Same author

LINS: A general medical Q&A framework for enhancing the quality and credibility of LLM-generated responses.

Nature communications·2025
Same author

HBV-associated hepatocellular carcinomas inhibit antitumor CD8<sup>+</sup> T cell via the long noncoding RNA HDAC2-AS2.

Nature communications·2025
Same author

GlycoRNAs: more than the intersection of glycobiology and RNA biology.

Life medicine·2025
Same journal

conMItion: an R package adjusting confounding factors for associations in multi-omics.

Bioinformatics (Oxford, England)·2026
Same journal

SpaMFG: a Spatial Multi-omics Integration Method based on Feature Grouping.

Bioinformatics (Oxford, England)·2026
Same journal

CSCN: Inference of Cell-Specific Causal Networks Using Single-Cell RNA-Seq Data.

Bioinformatics (Oxford, England)·2026
Same journal

Sparse CCA-Based Mediation Analysis with High-Dimensional Exposures and Mediators.

Bioinformatics (Oxford, England)·2026
Same journal

Enhancing Cross-Context Generalization in Drug Perturbation Prediction with a Multimodal Conditional Diffusion Framework.

Bioinformatics (Oxford, England)·2026
Same journal

Primer Design through Submodular Function Estimation.

Bioinformatics (Oxford, England)·2026
See all related articles

Related Experiment Video

Updated: Jun 25, 2025

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
09:58

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

13.7K

Readon: a novel algorithm to identify read-through transcripts with long-read sequencing data.

Siang Chen1,2, Hao Wang1,2, Dongdong Zhang1

  • 1Key Laboratory of Epigenetic Regulation and Intervention, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China.

Bioinformatics (Oxford, England)
|May 29, 2024
PubMed
Summary
This summary is machine-generated.

Scientists developed Readon, a new tool using a minimizer sketch algorithm to efficiently identify read-through transcripts from long sequencing data. This advances the study of these important RNA molecules in development and disease.

More Related Videos

Ultra-long Read Sequencing for Whole Genomic DNA Analysis
10:34

Ultra-long Read Sequencing for Whole Genomic DNA Analysis

Published on: March 15, 2019

22.8K
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

Related Experiment Videos

Last Updated: Jun 25, 2025

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
09:58

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

13.7K
Ultra-long Read Sequencing for Whole Genomic DNA Analysis
10:34

Ultra-long Read Sequencing for Whole Genomic DNA Analysis

Published on: March 15, 2019

22.8K
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

Area of Science:

  • Genomics
  • Transcriptomics
  • Bioinformatics

Background:

  • Clustered transcriptionally active regions in the human genome can lead to read-through transcripts, which have regulatory roles in development and tumorigenesis.
  • Previous methods for discovering read-through transcripts were limited by the short read lengths of next-generation sequencing.

Purpose of the Study:

  • To develop a novel algorithm for accurate and rapid identification of read-through transcripts, particularly from long and potentially erroneous third-generation sequencing data.

Main Methods:

  • A minimizer sketch algorithm was developed and implemented in a tool called Readon.
  • Readon processes reference sequences, identifies active regions, and uses a sliding window approach with minimizer calculations for indexing.
  • Candidate read-through transcripts are screened via alignment anchors, followed by confirmation steps.

Main Results:

  • Readon demonstrated superior performance in identifying read-through transcripts compared to existing software on both simulated and real data.
  • The tool accurately and quickly processes long sequencing data, overcoming previous limitations.
  • Two downstream tools were developed for predicting nonsense-mediated decay and visualizing splicing patterns.

Conclusions:

  • Readon provides an effective solution for discovering read-through transcripts from challenging sequencing data.
  • The tool and its associated downstream applications facilitate further research into the functional roles of read-through transcripts in biological processes and disease.