Drug resistance is a major impediment in cancer. Although it is generally thought that
acquired drug resistance is due to genetic mutations, emerging evidence indicates that …

Genomics is fundamentally changing epidemiological research. However, systematically
exploring hypotheses in pathogen evolution requires new modeling tools. Models …

How microbes adapt to a novel environment is a central question in evolutionary biology.
Although adaptive evolution must be fueled by beneficial mutations, whether higher …

Selection of mutants in a microbial population depends on multiple cellular traits. In serial-
dilution evolution experiments, three key traits are the lag time when transitioning from …

The adaptive dynamics of evolving microbial populations takes place on a complex fitness
landscape generated by epistatic interactions. The population generically consists of …

Molecular evolution is often conceptualised as adaptive walks on rugged fitness
landscapes, driven by mutations and constrained by incremental fitness selection. It is well …

Drug resistance in HIV type 1 (HIV-1) is a pervasive problem that affects the lives of millions
of people worldwide. Although records of drug-resistant mutations (DRMs) have been …

The fitness landscapes of genetic sequences are high-dimensional and “rugged” due to sign
epistasis. Empirical limitations and the abstractness of many landscape models limit our …

Adaptation dynamics on fitness landscapes is often studied theoretically in the strong-
selection, weak-mutation regime. However, in a large population, multiple beneficial mutants …

Across many problems in science and engineering, it is important to consider how much the
output of a given system changes due to perturbations of the input. Here, we investigate the …