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Alternative RNA Splicing

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 Splicing

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...

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 microarray-based...

RNA Splicing

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

Pre-mRNA Processing

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 to it (7-Methyl guanosine). This 5’ cap helps the...

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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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Published on: December 9, 2016

Statistical and Computational Methods for High-Throughput Sequencing Data Analysis of Alternative Splicing.

¹Molecular and Computational Biology, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089, USA.

Statistics in Biosciences

|September 24, 2013

Summary

High-throughput sequencing advances transcriptome analysis, revealing alternative splicing complexity. New computational methods are crucial for accurately quantifying these splicing events and understanding their regulation.

Keywords:

Alternative splicing High-throughput sequencing RNA-seq Transcript isoform

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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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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 and Molecular Biology
Bioinformatics and Computational Biology

Background:

High-throughput sequencing (HTS) has revolutionized transcriptome analysis, enabling detailed study of gene expression.
Alternative splicing is a key mechanism generating transcriptome diversity, but its complexity requires advanced analytical tools.

Purpose of the Study:

To review and discuss computational and statistical methods for analyzing alternative splicing events from HTS data.
To highlight novel HTS-based approaches for dissecting splicing regulation.

Main Methods:

Discussion of splice junction read mapping techniques.
Overview of exon-centric and isoform-centric quantification methods for alternative splicing.
Introduction to HITS-CLIP and splicing QTL analyses.

Main Results:

The abstract does not contain specific results but discusses methodologies.
Identifies the need for efficient computational tools to characterize and quantify alternative splicing.

Conclusions:

Advanced computational methods are essential for fully leveraging HTS data in alternative splicing research.
Novel HTS approaches like HITS-CLIP and splicing QTLs offer new avenues for studying splicing regulation.