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...

Ribosome Profiling

Ribosome Profiling

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...

You might also read

Related Articles

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

Sort by

Same author

Prediction of hospitalisation in young children with pneumonia in Malawi: A machine learning-based approach.

PLoS medicine·2026

Same author

An Integrative Network Analysis Framework for Identifying Altered Glycosylation Pathways Associated with Autism Spectrum Disorder.

Genes·2026

Same author

Intratumoral heterogeneity in microsatellite instability status at single-cell resolution.

iScience·2026

Same author

Individuals with intellectual disability have an increased burden of <i>de novo</i> variants in <i>cis</i>-regulatory elements of glutamatergic neurons.

medRxiv : the preprint server for health sciences·2025

Same author

Consistent asymmetry in DNA damage artefacts across target regions in exome sequencing data.

NAR genomics and bioinformatics·2025

Same author

Translon: a single term for translated regions.

Nature methods·2025

Search research articles

Related Experiment Video

Updated: May 3, 2026

Three Differential Expression Analysis Methods for RNA Sequencing: limma, EdgeR, DESeq2

Three Differential Expression Analysis Methods for RNA Sequencing: limma, EdgeR, DESeq2

Published on: September 18, 2021

Inference of allele-specific expression from RNA-seq data.

Paul K Korir¹, Cathal Seoighe

¹School of Mathematics, Statistics and Applied Mathematics, National University of Ireland, Galway (NUI Galway), Ireland.

Methods in Molecular Biology (Clifton, N.J.)

|January 31, 2014

Summary

Allele-specific expression (ASE) reveals gene expression variation between individuals. Understanding ASE requires careful interpretation of transcriptome sequencing data due to potential biases.

More Related Videos

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

Published on: May 28, 2021

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

Related Experiment Videos

Last Updated: May 3, 2026

Three Differential Expression Analysis Methods for RNA Sequencing: limma, EdgeR, DESeq2

Three Differential Expression Analysis Methods for RNA Sequencing: limma, EdgeR, DESeq2

Published on: September 18, 2021

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

Published on: May 28, 2021

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

Area of Science:

Genomics
Molecular Biology
Population Genetics

Background:

Differential transcript abundance from alternative alleles offers insights into gene expression variation.
Allele-specific expression (ASE) can arise from epigenetic factors like imprinting or DNA sequence variations affecting transcription or transcript stability.

Purpose of the Study:

To highlight the significance of studying allelic variation in gene regulation.
To underscore the increased power of detecting ASE with modern transcriptomics.

Main Methods:

Analysis of transcriptome sequencing data to detect allele-specific expression.
Consideration of potential biases and caveats in ASE inference.

Main Results:

ASE provides valuable information on interindividual and interstrain gene expression differences.
Advances in transcriptomics enhance the detection capabilities for ASE.

Conclusions:

ASE is a crucial area of study for understanding gene regulation.
Careful interpretation of transcriptome data is essential for accurate ASE inference due to inherent biases.