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

9.1K
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...
9.1K
Ribosome Profiling02:24

Ribosome Profiling

3.2K
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...
3.2K
RNA Splicing01:32

RNA Splicing

53.1K
Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
53.1K
Alternative RNA Splicing02:18

Alternative RNA Splicing

20.4K
Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
20.4K
Alternative RNA Splicing02:18

Alternative RNA Splicing

4.2K
4.2K

You might also read

Related Articles

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

Sort by
Same author

Tox21mer, A transformer foundation model for Tox21 high-throughput concentration-response curves data.

bioRxiv : the preprint server for biology·2026
Same author

Transcriptome-informed metabolic modeling reveals astrocyte-specific vulnerabilities in mild cognitive impairment and Alzheimer's disease progression.

Frontiers in bioinformatics·2026
Same author

Severe renal toxicity following adjuvant envafolimab in a patient with ultra-hypermutated (POLE) stage II colorectal cancer: a case report.

AME case reports·2026
Same author

Advances in endogenous hypochlorous acid-mediated regulation of tumor cell fates.

Frontiers in cell and developmental biology·2026
Same author

A Visual Inertia-Inspired Multimode Sensor Based on Pb-S Strongly Coupled Heterostructures for Information Fusion Positioning and Monitoring.

Advanced materials (Deerfield Beach, Fla.)·2026
Same author

Gut microbiota-derived indole-3-propionic acid promotes lymph node metastasis in gastric cancer via the aryl-hydrocarbon receptor signaling pathway.

Cancer & metabolism·2026
Same journal

Genome-wide analysis across Indian camel populations reveals genetic distinctiveness of the Kharai camel breed.

BMC genomics·2026
Same journal

Different genomic footprint of small insertion-deletion and structural variants determines the genetic divergence of indica and japonica rice.

BMC genomics·2026
Same journal

From nurse bee to queen egg: RNA-seq analysis of Apis mellifera eggs shows dietary protein-dependent gene regulation.

BMC genomics·2026
Same journal

A genome-wide association study to identify the genetic loci underlying carbapenem resistance in Acinetobacter baumannii.

BMC genomics·2026
Same journal

Comparative transcriptome analysis to reveal key drought stress-responsive genes in sorghum (Sorghum bicolor (L.) Moench).

BMC genomics·2026
Same journal

Tissue identity is the dominant determinant of cross-species transferability of a porcine developmental programme.

BMC genomics·2026
See all related articles

Related Experiment Video

Updated: Apr 23, 2026

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

5.9K

IUTA: a tool for effectively detecting differential isoform usage from RNA-Seq data.

Liang Niu, Weichun Huang, David M Umbach

  • 1Biostatistics Branch, National Institute of Environmental Health Sciences, Research Triangle Park, NC 27709, USA. li3@niehs.nih.gov.

BMC Genomics
|October 7, 2014
PubMed
Summary
This summary is machine-generated.

A new method, Isoform Usage Testing and Analysis (IUTA), accurately detects differential gene expression across tissues. This tool identifies significant isoform usage patterns, advancing cell and developmental biology research.

More Related Videos

Three Differential Expression Analysis Methods for RNA Sequencing: limma, EdgeR, DESeq2
10:10

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

Published on: September 18, 2021

42.5K
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

13.4K

Related Experiment Videos

Last Updated: Apr 23, 2026

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

5.9K
Three Differential Expression Analysis Methods for RNA Sequencing: limma, EdgeR, DESeq2
10:10

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

Published on: September 18, 2021

42.5K
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

13.4K

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Alternative splicing generates diverse transcript isoforms with varying stability and translational efficiency.
  • Tissue- and developmental stage-specific alternative splicing is crucial and can be linked to disease.
  • Detecting differential isoform usage is vital for understanding cell and developmental biology.

Purpose of the Study:

  • To introduce a novel method, IUTA, for testing differential isoform usage between sample groups.
  • To estimate isoform usage per gene and across sample groups.
  • To address the need for accurate isoform usage detection in biological research.

Main Methods:

  • IUTA formulates differential isoform usage testing within the Aitchison geometry for compositional data.
  • The method tests for equal means of probability distributions to identify isoform usage differences.
  • IUTA was implemented as an R package for accessibility.

Main Results:

  • IUTA identified significantly more genes with differential isoform usage compared to Cuffdiff2.
  • The method demonstrated superior performance over Cuffdiff2 in simulated data analysis.
  • Application to mouse RNA-Seq data revealed 2,073 significant genes with differential isoform usage across six tissues.

Conclusions:

  • IUTA accurately detects differential isoform usage, validated by simulations and real-world data.
  • The study provides the first comprehensive characterization of isoform usage across six mouse tissues.
  • IUTA is poised to become an essential tool for research in cell development and disease.