Viral dynamics: from genes to populations
Bacteriophages exploit their hosts in a myriad of ways. We develop detailed kinetic models of viral gene regulation and biophysics to predict how phages (and phage-derived components) determine infected cell fate. We also use a combination of ecological and evolutionary models to explain the principles by which phages exploit hosts in natural environments.
Quantitative microbial systems biology
Microbes make up for being small by being very complicated. Nearly every habitat, whether soils, lakes, oceans, our gut, is teeming with microbes. What is there? What are they doing? We try and answer these questions at multiple scales by developing systems approaches to gene regulation, ecological models of interactions, and bioinformatic methods for community analysis.
Infectious disease dynamics
We are interested in developing and testing models of infectious disease dynamics that make explicit links to large data sets and/or multi-scale phenomenon. We are particularly interested in assessing the role of stochasticity, in both transmission and reporting, in modifying the spread of disease & currently focus on oral-fecal pathogens such as cholera and shigella.
Plant Networks: From Structure to Principles (2003-2017, no longer active)
I have led multiple projects to improve the characterization of the physical structure of plant networks across scales and link structure with function and underlying principles of growth whenever possible. The start of this work began as a postdoc at Princeton University, working with Kiona Ogle and Henry on ontogenetic scaling in woody plants. As faculty, the core distinguishing feature of my...