Riboswitches are RNA molecules that regulate gene expression by sensing metabolites, presenting an interesting target for synthetic biology applications. We present a computational approach based on ViennaRNA tools to dissect and model RNA-ligand interaction dynamics under kinetic control, enabling simulation of riboswitch folding
In the world of synthetic biology, the design of RNA switches holds immense promise for various applications, ranging from diagnostics to therapeutics. This paper presents a comprehensive workflow for designing RNA switches that can dynamically alter their structural conformations in response to specific ligands
We investigate the influence of co-transcriptional folding on ligand binding and conformational switching in a type I-A 2'-deoxyguanosine (2'dG)-sensing riboswitch from Mesoplasma florum
In this study we propose a memory-efficient approach for local flooding of the lower portion of an RNA folding landscape