Simone Pernice

This paper introduces a stochastic model of tumor evolution that integrates genetic and environmental factors to simulate clonal dynamics and demonstrates how ecological feedbacks shape cancer progression.

The paper introduces a new modeling paradigm, UnifiedGreatMod, that integrates fine-grained and coarse-grained biological information to study system behavior, demonstrating its application in simulating E. coli metabolism and analyzing cell responses to infection.

The paper introduces ORCA, an open-source Shiny application for semi-automated analysis of cellular biology experiments, promoting reproducibility and open science practices.

CONNECTOR analyzes longitudinal tumor growth data to identify clusters and reveal new molecular associations with therapy response.