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Related Concept Videos

Alternative RNA Splicing02:18

Alternative RNA Splicing

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...
Alternative RNA Splicing02:18

Alternative RNA Splicing

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...
Exon Recombination02:32

Exon Recombination

The evolution of new genes is critical for speciation. Exon recombination, also known as exon shuffling or domain shuffling, is an important means of new gene formation. It is observed across vertebrates, invertebrates, and in some plants such as potatoes and sunflowers. During exon recombination, exons from the same or different genes recombine and produce new exon-intron combinations, which might evolve into new genes. 
Exon shuffling follows “splice frame rules.” Each exon has three reading...
RNA Splicing01:32

RNA Splicing

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...
RNA Splicing01:32

RNA Splicing

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...
Pre-mRNA Processing: RNA Splicing01:32

Pre-mRNA Processing: RNA Splicing

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...

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Related Experiment Video

Updated: Jun 25, 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

REMAS: a new regression model to identify alternative splicing events from exon array data.

Hao Zheng1, Xingyi Hang, Ji Zhu

  • 1LMAM, School of Mathematical Sciences and Center for Theoretical Biology, Peking University, Beijing 100871, PR China. porcupine.hao@gmail.com

BMC Bioinformatics
|February 12, 2009
PubMed
Summary

A new regression method for alternative splicing (AS) detection, REMAS, efficiently identifies AS events from exon array data. This method aids in understanding splicing-related diseases and advancing diagnostic and drug discovery efforts.

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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

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

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Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • Alternative splicing (AS) is a key regulator of gene expression and protein diversity in eukaryotes.
  • Dysregulation of AS is linked to various splicing-related diseases, highlighting the need for effective detection methods.
  • Exon arrays offer comprehensive AS analysis, but powerful algorithms for their data are lacking.

Purpose of the Study:

  • To develop a novel algorithm for identifying alternative splicing events from exon array data.
  • To address the need for advanced analytical tools in AS research.

Main Methods:

  • Developed REMAS (Regression method for AS detection), a variable selection and regression-based approach.
  • Employed a hierarchical model incorporating gene structure and transcriptional influences.
  • Utilized lasso-type penalties and an iterative two-step algorithm for gene and exon selection, addressing small sample size effects.

Main Results:

  • REMAS demonstrated efficient identification of potential AS events in both simulations and real data.
  • Identified AS events were validated through RT-PCR and supported by existing literature.
  • The algorithm effectively handles the large variable size inherent in exon array data.

Conclusions:

  • REMAS is a reliable and effective lasso regression algorithm for identifying AS events using exon array data.
  • The hierarchical model-based approach provides a robust framework for AS analysis.
  • This method contributes to advancing the study of AS and its role in disease.