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Markov models for accumulating mutations
Niko Beerenwinkel, Seth Sullivant
We introduce and analyze a waiting time model for the accumulation of genetic changes. The continuous time conjunctive Bayesian network is defined by a partially ordered set of mut…
Epistasis and Shapes of Fitness Landscapes
Niko Beerenwinkel, Lior Pachter, Bernd Sturmfels
The relationship between the shape of a fitness landscape and the underlying gene interactions, or epistasis, has been extensively studied in the two-locus case. Gene interactions…
Evolution on distributive lattices
Niko Beerenwinkel, Nicholas Eriksson, Bernd Sturmfels
We consider the directed evolution of a population after an intervention that has significantly altered the underlying fitness landscape. We model the space of genotypes as a distr…