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Models of microsatellite evolution
 Statistical Methods in Molecular Evolution, Series: Statistics for Biology and Health
, 2004
"... Microsatellites are simple sequence repeats in DNA, for example the motif AT repeated twentyfive times in a row. Microsatellites mutate by changing the number of their repeats, for example the (AT)25 mentioned in the previous sentence might become an (AT)24 or (AT)26 in that individual’s offspring. ..."
Abstract

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Microsatellites are simple sequence repeats in DNA, for example the motif AT repeated twentyfive times in a row. Microsatellites mutate by changing the number of their repeats, for example the (AT)25 mentioned in the previous sentence might become an (AT)24 or (AT)26 in that individual’s offspring.
Microsatellite evolution: Markov transition functions for a suite of models
 Theor. Popul. Biol
, 2007
"... This paper takes from the collection of models considered by Whittaker et. al. (2003) derived from direct observation of microsatellite mutation in parentchild pairs and provides analytical expressions for the probability distributions for the change in number of repeats over any given number of ge ..."
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This paper takes from the collection of models considered by Whittaker et. al. (2003) derived from direct observation of microsatellite mutation in parentchild pairs and provides analytical expressions for the probability distributions for the change in number of repeats over any given number of generations. The mathematical framework for this analysis is the theory of Markov processes. We find these expressions using two approaches, approximating by circulant matrices and solving a partial differential equation satisfied by the generating function. The impact of the differing choice of models is examined using likelihood estimates for time to most recent common ancestor. The analysis presented here may play a role in elucidating the connections between these two approaches and shows promise in reconciling differences between estimates for mutation rates based on Whittaker’s approach and methods based on phylogenetic analyses. Key words and phrases: microsatellites, Markov process, generating functions 1.