An approximate stationary solution for multi-allele neutral diffusion with low mutation rates
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Publication:2011531
Abstract: We address the problem of determining the stationary distribution of the multi-allelic, neutral-evolution Wright-Fisher model in the diffusion limit. A full solution to this problem for an arbitrary K x K mutation rate matrix involves solving for the stationary solution of a forward Kolmogorov equation over a (K - 1)-dimensional simplex, and remains intractable. In most practical situations mutations rates are slow on the scale of the diffusion limit and the solution is heavily concentrated on the corners and edges of the simplex. In this paper we present a practical approximate solution for slow mutation rates in the form of a set of line densities along the edges of the simplex. The method of solution relies on parameterising the general non-reversible rate matrix as the sum of a reversible part and a set of (K - 1)(K - 2)/2 independent terms corresponding to fluxes of probability along closed paths around faces of the simplex. The solution is potentially a first step in estimat- ing non-reversible evolutionary rate matrices from observed allele frequency spectra.
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- The transition distribution of a sample from a Wright-Fisher diffusion with general small mutation rates
- Rate matrix estimation from site frequency data
- An alternative derivation of the stationary distribution of the multivariate neutral Wright-Fisher model for low mutation rates with a view to mutation rate estimation from site frequency data
- Exact solution of the multi-allelic diffusion model
- Maximum likelihood estimators for scaled mutation rates in an equilibrium mutation-drift model
- STATIONARY SOLUTIONS OF A SELECTION MUTATION MODEL: THE PURE MUTATION CASE
- The stationary and quasi-stationary properties of neutral multi-type branching process diffusions
- Analytical results on the neutral non-equilibrium allele frequency spectrum based on diffusion theory
- An exact steady state solution of Fisher's geometric model and other models
- A Wright-Fisher graph model and the impact of directional selection on genetic variation
- Exact Markov chain and approximate diffusion solution for haploid genetic drift with one-way mutation
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