Visualization of sRNA-mRNA Interaction Predictions

Abstract : The central dogma in molecular biology postulated that 'DNA makes RNA makes protein', however this dogma has been recently extended to integrate new biological activities involving small non-coding RNAs, called sRNAs. In particular, it has been shown that sRNAs regulate the production of proteins by interacting on mRNAs to regulate positively or negatively their translations. That regulation of the mRNA translation is done by forming a base-pairing between the RNAs sequences of bases. In silico methods have been proposed by the bioinformatics community to provide a list of putative interactions to be experimentally validated. However, such approaches suffers from a poor specificity and therefore produce a large number of false predictions. In this paper, we present a new visualization technique for sRNA-mRNA interactions emphasizing the involved regions on the sRNA secondary structure drawing. Our approach also supports interactive exploration as the user can select and highlight interactions. We demonstrate the usefulness of our approach by a case study on E. coli bacteria performed by domain experts.
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Joris Sansen, Patricia Thebault, Isabelle Dutour, Romain Bourqui. Visualization of sRNA-mRNA Interaction Predictions. 20th International Conference Information Visualisation (IVS 2016), Jul 2016, Lisbonne, Portugal. pp.342-347, ⟨10.1109/IV.2016.14⟩. ⟨hal-01559083⟩



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