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

Pre-mRNA Processing: RNA Splicing01:36

Pre-mRNA Processing: RNA Splicing

5.2K
5.2K
Alternative RNA Splicing02:18

Alternative RNA Splicing

21.1K
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...
21.1K
Chromatin Structure and RNA Splicing02:41

Chromatin Structure and RNA Splicing

2.7K
2.7K
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
RNA Editing02:23

RNA Editing

9.0K
RNA editing is a post-transcriptional modification where a precursor mRNA (pre-mRNA) nucleotide sequence is changed by base insertion, deletion, or modification. The extent of RNA editing varies from a few hundred bases, in mitochondrial DNA of trypanosomes, to a just single base, in nuclear genes of mammals. Even a single base change in the pre-mRNA can convert a codon for one amino acid into the codon for another amino acid or a stop codon. This type of re-coding can significantly affect the...
9.0K
Pre-mRNA Processing: Modification of pre-mRNA Ends01:35

Pre-mRNA Processing: Modification of pre-mRNA Ends

9.2K
In eukaryotic cells, transcripts made by RNA polymerase are modified and processed before exiting the nucleus. Unprocessed RNA is called precursor mRNA or pre-mRNA to distinguish it from mature mRNA.
Once about 20-40 ribonucleotides have been joined together by RNA polymerase, a group of enzymes adds a cap to the 5' end of the growing transcript. In this process, a 5' phosphate is replaced by modified guanosine that has a methyl group attached (7-methyl guanosine). This 5' cap helps...
9.2K

You might also read

Related Articles

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

Sort by
Same author

Comparison of SERS spectral data sets of blood serum samples of hypopharyngeal cancer using silver and gold nanoparticles as substrates.

Bioanalysis·2026
Same author

The changing landscape of outpatient antibiotic prescriptions among advanced practice clinicians in the United States, 2011 and 2022.

Antimicrobial stewardship & healthcare epidemiology : ASHE·2026
Same author

Unraveling the Stereochemical Complexity of Phosphorothioate-Modified Oligonucleotides Using Analytical Technologies.

Nucleic acid therapeutics·2026
Same author

Evaluation and Comparison of Antibiotic Prescribing Practices and Treatment Outcomes in Children with Pneumonia Admitted to Public and Private Hospitals in Pakistan: A Retrospective Study.

Journal of epidemiology and global health·2026
Same author

Once-weekly somapacitan vs. daily norditropin in GHD: a systematic review and meta-analysis of efficacy and safety in children and adults.

Endocrine·2026
Same author

The status, barriers and associated facilitators of pharmaceutical care provision in public tertiary healthcare settings: a cross-sectional perspective from a low-middle-income country.

BMC health services research·2026

Related Experiment Video

Updated: Jun 19, 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

An effective deep learning-based approach for splice site identification in gene expression.

Mohsin Ali1, Dilawar Shah1, Shahid Qazi1

  • 1Department of Computer Science, Bacha Khan University, Charsadda, KP, Pakistan.

Science Progress
|July 25, 2024
PubMed
Summary
This summary is machine-generated.

This study introduces a deep learning approach using Long Short-Term Memory (LSTM) networks for accurate splice site identification in mRNA sequences. The method enhances gene expression analysis by rapidly and precisely mapping point mutations.

Keywords:
Artificial intelligenceRNA analysisbiomedical datadeep learninggenomicssplicing sites

More Related Videos

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
A Reporter Based Cellular Assay for Monitoring Splicing Efficiency
08:53

A Reporter Based Cellular Assay for Monitoring Splicing Efficiency

Published on: September 15, 2021

2.7K

Related Experiment Videos

Last Updated: Jun 19, 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
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
A Reporter Based Cellular Assay for Monitoring Splicing Efficiency
08:53

A Reporter Based Cellular Assay for Monitoring Splicing Efficiency

Published on: September 15, 2021

2.7K

Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Computational Biology

Background:

  • Eukaryotic gene expression relies on mRNA splicing, a complex process involving the spliceosome to remove introns and join exons.
  • Accurate identification of splice sequence sites is critical for functional mRNA generation but remains challenging with current methods.
  • Existing techniques for splice site detection are often time-consuming and lack the precision required for complex genomic analyses.

Purpose of the Study:

  • To develop a precise and reliable computer-aided diagnosis (CAD) technique for rapid identification of splice site sequences.
  • To leverage deep learning, specifically Long Short-Term Memory (LSTM) networks, for enhanced accuracy in splice site detection.
  • To compare the performance of the proposed LSTM framework against traditional machine learning and other deep learning models.

Main Methods:

  • A deep learning framework utilizing Long Short-Term Memory (LSTM) networks was designed for splice site sequence identification.
  • The network employs one-hot encodings to represent RNA sequences and extract distinct sequential patterns.
  • Performance was evaluated through an ablation study comparing LSTM against traditional machine learning, 1D-CNNs, and RNNs.

Main Results:

  • The proposed LSTM-based framework demonstrated superior performance in identifying splice site sequences compared to existing methods.
  • The LSTM network achieved improved accuracy, with a 3% increase for acceptor sites and a 2% increase for donor sites datasets.
  • The deep learning approach effectively mapped point mutations and identified crucial splicing patterns within RNA sequences.

Conclusions:

  • The developed deep learning CAD technique offers a precise and rapid solution for splice site identification in eukaryotes.
  • LSTM networks provide a powerful tool for extracting complex patterns in RNA sequences, significantly improving splice site detection accuracy.
  • This advancement in computational biology can accelerate research in gene expression and the understanding of genetic diseases related to splicing errors.