Abstract
RNA editing by A-to-I deamination is a relevant co/posttranscriptional modification carried out by ADAR enzymes. In humans, it has pivotal cellular effects and its deregulation has been linked to a variety of human disorders including neurological and neurodegenerative diseases and cancer. Despite its biological relevance, the detection of RNA editing variants in large transcriptome sequencing experiments (RNAseq) is yet a challenging computational task. To drastically reduce computing times we have developed a novel REDItools version able to identify A-to-I events in huge amount of RNAseq data employing High Performance Computing (HPC) infrastructures.
Here we show how to use REDItools v2 in HPC systems.
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Change history
03 August 2021
In the original version of this book, chapter 8 was published with incomplete list of authors. This has now been rectified in this revised version of the book.
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Acknowledgments
This work was supported by ELIXIR-IIB and PRACE projects 2016163924 and 2018194670.
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Lo Giudice, C. et al. (2021). RNA Editing Detection in HPC Infrastructures. In: Picardi, E. (eds) RNA Bioinformatics. Methods in Molecular Biology, vol 2284. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1307-8_14
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DOI: https://doi.org/10.1007/978-1-0716-1307-8_14
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