Progress toward SHAPE Constrained Computational Prediction of Tertiary Interactions in RNA Structure.

ABSTRACT: As more sequencing data accumulate and novel puzzling genetic regulations are discovered, the need for accurate automated modeling of RNA structure increases. RNA structure modeling from chemical probing experiments has made tremendous progress, however accurately predicting large RNA structures is still challenging for several reasons: RNA are inherently flexible and often adopt many energetically similar structures, which are not reliably distinguished by the available, incomplete thermodynamic model. Moreover, computationally, the problem is aggravated by the relevance of pseudoknots and non-canonical base pairs, which are hardly predicted efficiently. To identify nucleotides involved in pseudoknots and non-canonical interactions, we scrutinized the SHAPE reactivity of each nucleotide o

SUBMITTER: De Bisschop G 

PROVIDER: S-EPMC8628965 | biostudies-literature | 2021 Nov

REPOSITORIES: biostudies-literature