Weng, Shih ShiuanShih ShiuanWengYeh, Yang MingYang MingYehLi, Yu ChengYu ChengLiYI-CHANG LU2023-07-172023-07-172022-01-01978166548485502714310https://scholars.lib.ntu.edu.tw/handle/123456789/633748The Zuker algorithm is a widely-adopted method for rapid prediction of RNA secondary structures. In this work, we present a new hardware architecture based on the algorithm and implement its accelerator using TSMC 40-nm technology. The proposed architecture is capable of handling more types of dangling bases when compared to the previous hardware work. Besides, with better data re-use, the idling time and memory usage of our hardware modules can be effectively reduced, and thus a higher processing speed can be achieved. Compared to the well-known software approach, RNAstructure, our 16-processing-element design has an 11 times speedup for RNA sequences around 3000 bases.Dynamic programming | Hardware Accelerator | RNA Secondary Structure[SDGs]SDG3conference paper10.1109/ISCAS48785.2022.99372402-s2.0-85142530734https://api.elsevier.com/content/abstract/scopus_id/85142530734