NLStradamus: a simple Hidden Markov Model for nuclear localization signal prediction. - Alex N. Nguyen Ba; Anastassia Pogoutse; Nicholas Provart; Alan M. Moses (BMC Bioinform., 2009)

Predicting kinase substrates using conservation of local motif density. - Andy C. W. Lai; Alex N. Nguyen Ba; Alan M. Moses (Bioinform., 2012)

Detecting Functional Divergence after Gene Duplication through Evolutionary Changes in Posttranslational Regulatory Sequences. - Alex N. Nguyen Ba; Bob Strome; Jun Jie Hua; Jonathan Desmond; Isabelle Gagnon-Arsenault; Eric L. Weiss; Christian R. Landry; Alan M. Moses (PLoS Comput. Biol., 2014)

Short linear motifs in intrinsically disordered regions modulate HOG signaling capacity. - Bob Strome; Ian Shenyen Hsu; Mitchell Li Cheong Man; Taraneh Zarin; Alex N. Nguyen Ba; Alan M. Moses (BMC Syst. Biol., 2018)