RNA Infrastructure Profiling Illuminates Transcriptome Structure in Crowded Spaces.

ABSTRACT: RNAs can fold into compact three-dimensional structures, and most RNAs undergo protein interactions in the cell. These compact and occluded environments can block the ability of structure-probing agents to provide useful data about the folding and modification of the underlying RNA. The development of probes that can analyze structure in crowded settings, and differentiate the proximity of interactions, can shed new light on RNA biology. To this end, here we employ 2'-OH-reactive probes that are small enough to access folded RNA structure underlying many close molecular contacts within cells, providing considerably broader coverage for intracellular RNA structural analysis. We compare reverse transcriptase stops in RNA-Seq data from probes of small and standard size to assess RNA-protein p

SUBMITTER: Xiao L 

PROVIDER: S-EPMC10592667 | biostudies-literature | 2023 Oct

REPOSITORIES: biostudies-literature