J. Marchi

Metapopulation model of phage therapy of an acute Pseudomonas aeruginosa lung infection

This study uses a spatially structured metapopulation model and in vivo experiments to evaluate how lung anatomy and immune responses affect the efficacy of phage therapy for Pseudomonas aeruginosa infections.

Macrophage-induced reduction of bacteriophage density limits the efficacy of in vivo pulmonary phage therapy

This study shows that macrophages reduce bacteriophage density in the lungs, limiting the effectiveness of phage therapy in treating Pseudomonas aeruginosa pneumonia.

Antigenic waves of virus-immune co-evolution

This paper develops a mathematical framework to model antigenic waves in virus-immune co-evolution, showing how cross-reactivity shapes the dynamics of pathogen and immune adaptation.

Size and structure of the sequence space of repeat proteins

The paper estimates the sequence space size of repeat protein families using maximum entropy models and finds that correlations between amino acid positions significantly affect diversity.

Dissecting the control mechanisms for DNA replication and cell division in E. coli

This study re-evaluates existing models of DNA replication and cell division in E. coli, concluding that replication is not the sole bottleneck and proposing a dual-cycle mechanism.