ArticleNucleic acids research2021
CoBold: a method for identifying different functional classes of transient RNA structure features that can impact RNA structure formation in vivo.
Article in Nucleic acids research, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Observation of coordinated RNA folding events by systematic cotranscriptional RNA structure probing.Nature communications · 2023Article
- e-RNA: a collection of web-servers for the prediction and visualisation of RNA secondary structure and their functional features.Nucleic acids research · 2023Article
- Tuning strand displacement kinetics enables programmable ZTP riboswitch dynamic range in vivo.Nucleic acids research · 2023Article
- ShapeSorter: a fully probabilistic method for detecting conserved RNA structure features supported by SHAPE evidence.Nucleic acids research · 2022Article
- Women in the European Virus Bioinformatics Center.Viruses · 2022Article
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Authors and funding
3 authors.
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Abstract
RNA structure formation in vivo happens co-transcriptionally while the transcript is being made. The corresponding co-transcriptional folding pathway typically involves transient RNA structure features that are not part of the final, functional RNA structure. These transient features can play important functional roles of their own and also influence the formation of the final RNA structure in vivo. We here present CoBold, a computational method for identifying different functional classes of transient RNA structure features that can either aid or hinder the formation of a known reference RNA structure. Our method takes as input either a single RNA or a corresponding multiple-sequence alignment as well as a known reference RNA secondary structure and identifies different classes of transient RNA structure features that could aid or prevent the formation of the given RNA structure. We make CoBold available via a web-server which includes dedicated data visualisation.
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