5 papers
Combinatorics of polymer models of early metabolism
Oliver Weller-Davies, Mike Steel, Jotun Hein
Polymer models are a widely used tool to study the prebiotic formation of metabolism at the origins of life. Counts of the number of reactions in these models are often crucial in…
KwARG: Parsimonious reconstruction of ancestral recombination graphs with recurrent mutation
Anastasia Ignatieva, Rune B. Lyngsø, Paul A. Jenkins +1
The reconstruction of possible histories given a sample of genetic data in the presence of recombination and recurrent mutation is a challenging problem, but can provide key insigh…
A characterisation of the reconstructed birth-death process through time rescaling
Anastasia Ignatieva, Jotun Hein, Paul A. Jenkins
The dynamics of a population exhibiting exponential growth can be modelled as a birth-death process, which naturally captures the stochastic variation in population size over time.…
Combinatorial results for network-based models of metabolic origins
Oliver Weller-Davies, Mike Steel, Jotun Hein
A key step in the origin of life is the emergence of a primitive metabolism. This requires the formation of a subset of chemical reactions that is both self-sustaining and collecti…
Toroidal diffusions and protein structure evolution
Eduardo García-Portugués, Michael Golden, Michael Sørensen +3
This chapter shows how toroidal diffusions are convenient methodological tools for modelling protein evolution in a probabilistic framework. The chapter addresses the construction…