RNA interaction format: a general data format for RNA interactions.

Richard A Schäfer, Dominik Rabsch, Guillaume E Scholz, Peter F Stadler, Wolfgang R Hess, Rolf Backofen, Jörg Fallmann, Björn Voß

Bioinformatics (Oxford, England) 2023 Nov 01

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RNA molecules play crucial roles in various biological processes. They mediate their function mainly by interacting with other RNAs or proteins. At present, information about these interactions is distributed over different resources, often providing the data in simple tab-delimited formats that differ between the databases. There is no standardized data format that can capture the nature of all these different interactions in detail. Here, we propose the RNA interaction format (RIF) for the detailed representation of RNA-RNA and RNA-Protein interactions and provide reference implementations in C/C++, Python, and JavaScript. RIF is released under licence GNU General Public License version 3 (GNU GPLv3) and is available on https://github.com/RNABioInfo/rna-interaction-format. © The Author(s) 2023. Published by Oxford University Press.

Citation

Richard A Schäfer, Dominik Rabsch, Guillaume E Scholz, Peter F Stadler, Wolfgang R Hess, Rolf Backofen, Jörg Fallmann, Björn Voß. RNA interaction format: a general data format for RNA interactions. Bioinformatics (Oxford, England). 2023 Nov 01;39(11)