Version 1
: Received: 21 November 2023 / Approved: 22 November 2023 / Online: 22 November 2023 (14:54:28 CET)
How to cite:
Kazanov, F.M.; Matveev, E.V.; Ponomarev, G.V.; Ivankov, D.N.; Kazanov, M.D. RNAsselem: a Python Package for Descriptive Analysis of RNA Secondary Structure Elements in Viral Genomes. Preprints2023, 2023111394. https://doi.org/10.20944/preprints202311.1394.v1
Kazanov, F.M.; Matveev, E.V.; Ponomarev, G.V.; Ivankov, D.N.; Kazanov, M.D. RNAsselem: a Python Package for Descriptive Analysis of RNA Secondary Structure Elements in Viral Genomes. Preprints 2023, 2023111394. https://doi.org/10.20944/preprints202311.1394.v1
Kazanov, F.M.; Matveev, E.V.; Ponomarev, G.V.; Ivankov, D.N.; Kazanov, M.D. RNAsselem: a Python Package for Descriptive Analysis of RNA Secondary Structure Elements in Viral Genomes. Preprints2023, 2023111394. https://doi.org/10.20944/preprints202311.1394.v1
APA Style
Kazanov, F.M., Matveev, E.V., Ponomarev, G.V., Ivankov, D.N., & Kazanov, M.D. (2023). RNAsselem: a Python Package for Descriptive Analysis of RNA Secondary Structure Elements in Viral Genomes. Preprints. https://doi.org/10.20944/preprints202311.1394.v1
Chicago/Turabian Style
Kazanov, F.M., Dmitry N Ivankov and Marat D. Kazanov. 2023 "RNAsselem: a Python Package for Descriptive Analysis of RNA Secondary Structure Elements in Viral Genomes" Preprints. https://doi.org/10.20944/preprints202311.1394.v1
Abstract
Recent advancements in experimental and computational methods for RNA secondary structure detection have revealed the crucial role of RNA structural elements in diverse molecular processes within living cells. It has been demonstrated that the secondary structure of the entire viral genome is often responsible for performing crucial functions in the viral life cycle and also influences virus evolution. To investigate the role of viral RNA secondary structure, alongside experimental techniques, the use of bioinformatics tools is important for analyzing various secondary structure patterns, including hairpin loops, internal loops, multifurcations, external loops, bulges, stems, and pseudoknots. Here, we have introduced a Python package for analyzing RNA secondary structure elements in viral genomes, which includes the recognition of common secondary structure patterns, the generation of descriptive statistics for these structural elements, and the provision of their basic properties. We applied the developed package to analyze the secondary structures of complete viral genomes collected from the literature, aiming to gain insights into viral function and evolution. Both the package and the collection of secondary structures of viral genomes are available at http://github.com/KazanovLab/RNAsselem.
Copyright:
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
