maxATAC: Genome-scale transcription-factor binding prediction from ATAC-seq with deep neural networks. - Tareian A. Cazares; Faiz W. Rizvi; Balaji Iyer; Xiaoting Chen; Michael Kotliar; Anthony T. Bejjani; Joseph A. Wayman; Omer Donmez; Benjamin Wronowski; Sreeja Parameswaran; Leah C. Kottyan; Artem Barski; et al. (PLoS Comput. Biol., 2023)

SeedMatchR: identify off-target effects mediated by siRNA seed regions in RNA-seq experiments. - Tareian A. Cazares; Richard E. Higgs; Jibo Wang; Hatice Gulcin Ozer (Bioinform., 2024)