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CYCLeR - a novel tool for the full isoform assembly and quantification of circRNAs

Item Type:Preprint
Title:CYCLeR - a novel tool for the full isoform assembly and quantification of circRNAs
Creators Name:Stefanov, S.R. and Meyer, I.M.
Abstract:Splicing is one key mechanism determining the state of any eukaryotic cell. Apart from linear splice variants, circular splice variants (circRNAs) can arise via non canonical splicing involving a back-splice junction (BSJ). Most existing methods only identify circRNAs via the corresponding BSJ, but do not aim to estimate their full sequence identity or to identify different, alternatively spliced circular isoforms arising from the same BSJ. We here present CYCLeR, the first computational method for identifying the full sequence identify of new and alternatively spliced circRNAs and their abundances while simultaneously co-estimating the abundances of known linear splicing isoforms. We show that CYCLeR significantly out-performs existing methods in terms of sensitivity, precision and quantification of transcripts. When analysing D. melanogaster data, CYCLeR uncovers biological patterns of circRNA expression that other methods fail to observe.
Keywords:Animals, Drosophila melagnogaster
Source:bioRxiv
Publisher:Cold Spring Harbor Laboratory Press
Article Number:2021.04.27.441578
Date:28 April 2021
Official Publication:https://doi.org/10.1101/2021.04.27.441578

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