Communications in Information and Systems

Volume 22 (2022)

Number 3

Special issue on bioinformatics and biophysics in honor of professor Michael Waterman on his 80th birthday

Guest Editors: Fengzhu Sun (University of Southern California), Guowei Wei (Michigan State University), Stephen S.-T. Yau (Tsinghua University), and Shan Zhao (University of Alabama)

Contents

Preface

Fengzhu Sun, Guowei Wei, Stephen S.-T. Yau, and Shan Zhao

pp. 303-304

Benchmarking electrostatic free energy of the nonlinear Poisson–Boltzmann model for the Kirkwood sphere

Sylvia Amihere, Weihua Geng, and Shan Zhao

pp. 305-315

Nucleotide amino acid k-mer vector: an alignment-free method for comparing genomic sequences

Xiaona Bao, Lily He, Jingan Cui, and Stephen S.-T. Yau

pp. 317-337

Mathematical artificial intelligence design of mutation-proof COVID-19 monoclonal antibodies

Jiahui Chen and Guo-Wei Wei

pp. 339-361

A combined approach to RNA secondary structure prediction based on deep learning and minimum free energy model

Xiaoling He, Xiujuan Ou, Hong Yao, Jun Wang, and Yi Xiao

pp. 363-382

A graph-theoretical approach to DNA similarity analysis

Dong Quan Ngoc Nguyen, Lin Xing, Phuong Dong Tan Le, and Lizhen Lin

pp. 383-400

Dissecting role of AAA-ATPase RUVBLs in circadian system via mathematical modeling

Ziqing Yu and Erquan Zhang

pp. 401-427