Predicting RNA secondary structures from sequence and probing data

Methods. 2016 Jul 1:103:86-98. doi: 10.1016/j.ymeth.2016.04.004. Epub 2016 Apr 5.

Abstract

RNA secondary structures have proven essential for understanding the regulatory functions performed by RNA such as microRNAs, bacterial small RNAs, or riboswitches. This success is in part due to the availability of efficient computational methods for predicting RNA secondary structures. Recent advances focus on dealing with the inherent uncertainty of prediction by considering the ensemble of possible structures rather than the single most stable one. Moreover, the advent of high-throughput structural probing has spurred the development of computational methods that incorporate such experimental data as auxiliary information.

Keywords: RNA secondary structure prediction; Structure probing.

Publication types

  • Review
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Base Sequence
  • Computational Biology
  • Computer Simulation
  • Humans
  • Models, Molecular
  • RNA / chemistry*
  • RNA Folding
  • Sequence Analysis, RNA

Substances

  • RNA