RNA interaction format: a general data format for RNA interactions

Abstract Summary 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...

Full description

Saved in:
Bibliographic Details
Published in:Bioinformatics (Oxford, England) England), 2023-11, Vol.39 (11)
Main Authors: Schäfer, Richard A, Rabsch, Dominik, Scholz, Guillaume E, Stadler, Peter F, Hess, Wolfgang R, Backofen, Rolf, Fallmann, Jörg, Voß, Björn
Format: Article
Language:English
Citations: Items that this one cites
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Abstract Summary 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. Availability and implementation 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.
ISSN:1367-4811
1367-4811
DOI:10.1093/bioinformatics/btad665