OrgDyn: feature- and model-based characterization of spatial and temporal organoid dynamics. - Zaki Hasnain; Andrew K. Fraser; Dan Georgess; Alex Choi; Paul Macklin; Joel S. Bader; Shelly R. Peyton; Andrew J. Ewald; Paul K. Newton (Bioinform., 2020)

Between-tumor and within-tumor heterogeneity in invasive potential. - Veena Padmanaban; Yohannes Tsehay; Kevin J. Cheung; Andrew J. Ewald; Joel S. Bader (PLoS Comput. Biol., 2020)

Prioritizing drug targets by perturbing biological network response functions. - Matthew C. Perrone; Michael G. Lerner; Matthew Dunworth; Andrew J. Ewald; Joel S. Bader (PLoS Comput. Biol., 2024)