1. Visualization of RNA secondary structure with pseudoknots
- Author
-
Yuan Yan Tang, Lina Yang, Xichun Li, Huiwu Luo, and Yang Liu
- Subjects
Discrete wavelet transform ,Computer science ,business.industry ,Applied Mathematics ,RNA ,Pattern recognition ,Function (mathematics) ,Fractal dimension ,Nucleic acid secondary structure ,Visualization ,Signal Processing ,Artificial intelligence ,business ,Information Systems - Abstract
The function of pseudoknots cannot be ignored in the RNA secondary structure. Existing methods for analyzing RNA secondary structures with pseudoknots exhibit many shortcomings. This paper presents a novel RNA secondary structure visualization method in the case of a joint analysis of RNA primary structures and secondary structures. The way is based on the page number representation of the RNA secondary structure. It innovatively uses five vectors to represent bases, which are sequentially connected to outline the characteristics of the RNA secondary structure. The method covers almost all the constituent elements of the RNA secondary structure and extracts features completely. Experiments are based on the available techniques for large-scale annotation of RNA secondary structures, using a combination method of discrete wavelet transform and fractal dimension. The classification effect is compared with the previous RNA secondary structure representation methods. Experimental results show that the RNA secondary structure visualization method proposed in this paper has good application prospects in RNA secondary structure classification.
- Published
- 2021
- Full Text
- View/download PDF