A modular framework for multiscale, multicellular, spatiotemporal modeling of acute primary viral infection and immune response in epithelial tissues and its application to drug therapy timing and effectiveness. - T. J. Sego; Josua Aponte-Serrano; Juliano Ferrari Gianlupi; Samuel R. Heaps; Kira Breithaupt; Lutz Brusch; Jessica R. Crawshaw; James M. Osborne; Ellen M. Quardokus; Richard K. Plemper; James A. Glazier (PLoS Comput. Biol., 2020)

Multicellular spatial model of RNA virus replication and interferon responses reveals factors controlling plaque growth dynamics. - Josua Aponte-Serrano; Jordan J. A. Weaver; T. J. Sego; James A. Glazier; Jason E. Shoemaker (PLoS Comput. Biol., 2021)

Building digital twins of the human immune system: toward a roadmap. - Reinhard C. Laubenbacher; Anna Niarakis; Tomás Helikar; Gary An; B. Shapiro; Rahuman S. Malik-Sheriff; T. J. Sego; Adam C. Knapp; Paul Macklin; James A. Glazier (npj Digit. Medicine, 2022)

Tissue Forge: Interactive biological and biophysics simulation environment. - T. J. Sego; James P. Sluka; Herbert M. Sauro; James A. Glazier (PLoS Comput. Biol., 2023)

SimService: a lightweight library for building simulation services in Python. - T. J. Sego (Bioinform., 2024)