- A Computational Framework for Multilevel Morphologies (book chapter, 2012) — Sara Montagna, Mirko Viroli
- An Agent-based Model for the Pattern Formation in Drosophila Melanogaster (paper in proceedings, 2010) — Sara Montagna, Nicola Donati, Andrea Omicini
- A Framework for Modelling and Simulating Networks of Cells (paper in proceedings, 2010) — Sara Montagna, Mirko Viroli
- An Automatic Quantification and Registration Strategy to Create a Gene Expression Atlas of Zebrafish Embryogenesis (paper in proceedings, 2009) — Carlos Castro Gonzalez, Miguel Angel Luengo-Oroz, Sophie Desnoulez, Louise Duloquin, Laura Fernández-de-Manuel, Sara Montagna, Maria J. Ledesma-Carbayo, Paul Bourgine, Nadine Peyrieras, Andres Santos
- Parameter tuning of a stochastic biological simulator by metaheuristics (paper in proceedings, 2009) — Sara Montagna, Andrea Roli
