The amino acid sequence of a protein affects both its structure and its function. Thus, the
ability to modify the sequence, and hence the structure and activity, of individual proteins in …

Many models of evolution calculate the rate of evolution by multiplying the rate at which new
mutations originate within a population by a probability of fixation. Here we review the …

For a quantitative understanding of the process of adaptation, we need to understand its
“raw material,” that is, the frequency and fitness effects of beneficial mutations. At present …

Much of the current theory of adaptation is based on Gillespie's mutational landscape model
(MLM), which assumes that the fitness values of genotypes linked by single mutational steps …

Kauffman's NK-model is a paradigmatic example of a class of stochastic models of genotypic
fitness landscapes that aim to capture generic features of epistatic interactions in multilocus …

Fitness landscapes map the relationship between genotypes and fitness. However, most
fitness landscape studies ignore the genetic architecture imposed by the codon table and …

The major histocompatibility complex (MHC) is a central component of the vertebrate
immune system and hence evolves in the regime of a host–pathogen evolutionary race. The …

We present an accelerated algorithm to forward-simulate origin-fixation models. Our
algorithm requires, on average, only about two fitness evaluations per fixed mutation …

We study adaptation of a haploid asexual population on a fitness landscape defined over
binary genotype sequences of length L. We consider greedy adaptive walks in which the …

Understanding evolution on complex fitness landscapes is difficult both because of the large
dimensionality of sequence space and the stochasticity inherent to population-genetic …