Prediction of RNA secondary structure based on stem region replacement using the RSRNA algorithm. Issue 1 (20th May 2021)

• Record Type: Journal Article
• Authors: Xu, Chengzhen; Gao, Longjian; Li, Jin; Shen, Longfeng; Liang, Hong; Luan, Kuan; Wu, Xiaomin
• Is Part Of: Computer methods in biomechanics and biomedical engineering. Volume 24:Issue 1(2021)
• Page Start: 101
• Page End: 114
• Publication Date: 2021-05-20
• Subjects: RNA secondary structure -- rsRNA -- stem pool -- combinatorial optimization algorithm; Biomechanics -- Data processing -- Periodicals; Biomedical engineering -- Periodicals; Biomechanics -- Periodicals; Biomedical Engineering -- methods -- Periodicals; Computing Methodologies -- Periodicals; 612.7
• DOI: 10.1080/10255842.2020.1813280
• Languages: English
• ISSNs: 1025-5842

Abstract

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.