The spectrophotometer has been used for decades to measure the density of bacterial
populations as the turbidity expressed as optical density–OD. However, the OD alone is an …

Bacterial colonization poses significant health risks, such as infestation of surfaces in
biomedical applications and clean water unavailability. If maintaining the surrounding water …

The widespread use of antibiotics has caused great concern in the biosafety of probiotics. In
this study, we conducted a 12-month adaptive laboratory evolution (ALE) experiment to …

Antimicrobial resistance (AMR) is a global threat. A better understanding of how antibiotic
use and between-ward patient transfers (or connectivity) impact population-level AMR in …

Ordinary differential equation models used in mathematical epidemiology assume explicitly
or implicitly large populations. For the study of infections in a hospital, this is an extremely …

We analyze data to build a quantitative understanding of the world. Linear algebra is the
foundation to algorithms, dating back one hundred years, for extracting structure from data …

Antibiotic resistance is a powerful model for studying evolutionary biology and population
genetics. For the purpose of these evolutionary studies, fitness data have been …

Since the discovery of penicillin, antibiotics have been an essential tool in the treatment of
bacterial infections and diseases. It is estimated that antibiotics and antibiotic resistance …

We propose a solution to the problem of finding an empirical therapy policy in a health care
facility that minimizes the cumulative infected patient-days over a given time horizon. We …

This dissertation presents mathematical models, numerical methods, and data driven
investigations of heritable cellular phenotypes. First, mathematical models and numerical …