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Prediction of RNA secondary structure based on stem region replacement using the RSRNA algorithm

Author

Listed:
  • Chengzhen Xu
  • Longjian Gao
  • Jin Li
  • Longfeng Shen
  • Hong Liang
  • Kuan Luan
  • Xiaomin Wu

Abstract

RNA functions, including the regulation of various cellular activities, seem to be closely related to its structure. However, accurately predicting RNA secondary structures can be difficult. Structural prediction can be achieved by selecting stem areas that are suitable and compatible from stem pools. Here, we propose a method for predicting the secondary structure of non-coding RNA based on stem region substitution, which we named RSRNA. This method is compatible with nested RNA secondary structures, while reducing any randomness. Our algorithm had higher performance and prediction accuracy than other algorithms, which deems it more effective for future RNA structure studies.

Suggested Citation

  • Chengzhen Xu & Longjian Gao & Jin Li & Longfeng Shen & Hong Liang & Kuan Luan & Xiaomin Wu, 2021. "Prediction of RNA secondary structure based on stem region replacement using the RSRNA algorithm," Computer Methods in Biomechanics and Biomedical Engineering, Taylor & Francis Journals, vol. 24(1), pages 101-114, May.
    • Handle: RePEc:taf:gcmbxx:v:24:y:2021:i:1:p:101-114
    DOI: 10.1080/10255842.2020.1813280
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