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Related Concept Videos

Alternative RNA Splicing02:18

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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...
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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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A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is comprised  of nucleotides and proteins are comprised of amino acids, a mediator is required to convert the information encoded in DNA into proteins. This mediator is the messenger RNA (mRNA). mRNA copies the blueprint from DNA by a process called transcription. In eukaryotes, transcription occurs in the nucleus by complementary base-pairing with the DNA template. The mRNA is then...
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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
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Vials: Visualizing Alternative Splicing of Genes.

Hendrik Strobelt, Bilal Alsallakh, Joseph Botros

    IEEE Transactions on Visualization and Computer Graphics
    |November 4, 2015
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    Summary

    Alternative splicing generates diverse protein isoforms from single DNA sequences. A new tool, Vials, offers scalable visualization for analyzing isoform abundance and data quality in complex datasets.

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    Area of Science:

    • Genomics
    • Bioinformatics
    • Molecular Biology

    Background:

    • Alternative splicing produces multiple protein isoforms from a single gene.
    • Understanding isoform abundance is crucial for disease research and targeted therapies.
    • Current visualization methods for isoform data are inefficient and not scalable.

    Purpose of the Study:

    • To develop a novel visual analysis tool, Vials, for exploring alternative splicing data.
    • To enable efficient and scalable analysis of isoform abundance and data quality.
    • To facilitate the identification of isoform patterns across multiple samples and groups.

    Main Methods:

    • Vials visualizes gene read abundance, junction evidence, and predicted isoform frequencies.
    • The tool supports simultaneous analysis of numerous samples across multiple groups.
    • Case studies using publicly available datasets demonstrate Vials' capabilities.

    Main Results:

    • Vials provides a scalable solution for complex isoform data visualization.
    • The tool enables identification of isoform abundance patterns within sample groups.
    • Vials aids in evaluating the quality of alternative splicing data.

    Conclusions:

    • Vials enhances the exploration and analysis of alternative splicing data.
    • The tool's scalability and visualization capabilities improve understanding of isoform dynamics.
    • Vials supports researchers in identifying disease-related isoform patterns and assessing data integrity.