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bioRxiv · 10.1101/2021.12.06.470871

CLIPreg: Constructing translational regulatory networks from CLIP-, Ribo- and RNA-seq

Kerouanton, B.·Schafer, S.·Ho, L.·Chothani, S.·Rackham, O. J.
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Abstract

MotivationThe creation and analysis of gene regulatory networks have been the focus of bioinformatic research and underpins much of what is known about gene regulation. However, as a result of a bias in the availability of data-types that are collected, the vast majority of gene regulatory network resources and tools have focused on either transcriptional regulation or protein-protein interactions. This has left other areas of regulation, for instance translational regulation, vastly underrepresented despite them having been shown to play a critical role in both health and disease. ResultsIn order to address this we have developed CLIPreg, a package that integrates RNA, Ribo and CLIP-sequencing data in order to construct translational regulatory networks coordinated by RNA-binding proteins. This is the first tool of its type to be created, allowing for detailed investigation into a previously unseen layer of regulation. Availability and implementationCLIPreg is available at https://github.com/SGDDNB/CLIPreg. Contactowen.rackham@duke-nus.edu.sg or sonia.chothani@u.duke.nus.edu

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Kerouanton, B., Schafer, S., Ho, L., Chothani, S., Rackham, O. J.. 2021-12-07. CLIPreg: Constructing translational regulatory networks from CLIP-, Ribo- and RNA-seq. https://doi.org/10.1101/2021.12.06.470871

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