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Related Concept Videos

Alternative RNA Splicing02:18

Alternative RNA Splicing

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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.
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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. 
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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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Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
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MARVEL: an integrated alternative splicing analysis platform for single-cell RNA sequencing data.

Wei Xiong Wen1,2, Adam J Mead1,3, Supat Thongjuea1,2,3

  • 1MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, UK.

Nucleic Acids Research
|January 12, 2023
PubMed
Summary
This summary is machine-generated.

MARVEL is a new R package for analyzing alternative splicing in single cells. It provides a comprehensive tool for understanding gene expression heterogeneity and biological insights from RNA sequencing data.

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Area of Science:

  • Genomics
  • Computational Biology
  • Molecular Biology

Background:

  • Alternative splicing drives cellular heterogeneity in gene expression.
  • Analyzing splicing dynamics at single-cell resolution is computationally challenging.
  • Existing tools for single-cell splicing analysis are limited.

Purpose of the Study:

  • To introduce MARVEL, a comprehensive R package for single-cell splicing analysis.
  • To enable systematic and integrated analysis of splicing and gene expression in single cells.
  • To characterize the splicing landscape and uncover biological insights.

Main Methods:

  • MARVEL is an R package designed for single-cell splicing analysis.
  • It is applicable to RNA sequencing data from both plate- and droplet-based methods.
  • Extensive benchmarking against existing tools was performed.

Main Results:

  • MARVEL was benchmarked against available single-cell splicing analysis tools.
  • The package demonstrated utility across diverse cell types and datasets, including disease contexts.
  • MARVEL facilitates integrated splicing and gene expression analysis.

Conclusions:

  • MARVEL provides a robust computational tool for single-cell splicing analysis.
  • The package enhances the characterization of the splicing landscape in individual cells.
  • MARVEL aids in revealing novel biological insights from single-cell RNA sequencing data.