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Methods to study splicing from high-throughput RNA sequencing data.

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Affiliations

  • 1. Computational Genomics, Universitat Pompeu Fabra, Barcelona, Spain.
      Authors
    • Alamancos GP 1
    (1 author)

ORCIDs linked to this article

Methods in Molecular Biology (Clifton, N.J.), 01 Jan 2014, 1126:357-397
https://doi.org/10.1007/978-1-62703-980-2_26 PMID: 24549677 

Abstract 

The development of novel high-throughput sequencing (HTS) methods for RNA (RNA-Seq) has provided a very powerful mean to study splicing under multiple conditions at unprecedented depth. However, the complexity of the information to be analyzed has turned this into a challenging task. In the last few years, a plethora of tools have been developed, allowing researchers to process RNA-Seq data to study the expression of isoforms and splicing events, and their relative changes under different conditions. We provide an overview of the methods available to study splicing from short RNA-Seq data, which could serve as an entry point for users who need to decide on a suitable tool for a specific analysis. We also attempt to propose a classification of the tools according to the operations they do, to facilitate the comparison and choice of methods.

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Read article at publisher's site: https://doi.org/10.1007/978-1-62703-980-2_26

Read article for free, from open access legal sources, via Unpaywall: https://arxiv.org/pdf/1304.5952Unpaywall

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