Probabilistic models of genome shuffling

DOI10.1007/BF02458839MaRDI QIDQ1111971zbMATH OpenOpenAlexWikidataFDO

Authors S. H. Smith

Publication date 1989

Published in Bulletin of Mathematical Biology (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1007/bf02458839

zbMATH Keywords

comparison of entire genomesequilibrium distributionfragment alignmentslinear and circular genomesrandom migration process for fragmentssequence comparisonSimulations

Mathematics Subject Classification ID

Genetics and epigenetics (92D10) Problems related to evolution (92D15)

Review text

The comparison of entire genomes in evolutionary studies gives rise to alignments characterized by many intersections, or inversions in the order of two fragments in different genomes. To model this, we suggest a random migration process for fragments, and discuss its equilibrium distribution in the case of linear and circular genomes. Simulations are carried out to explore ``cut-off behavior as the process approaches equilibrium. We define a new process to take into account the indistinguishability of two fragments which are adjacent in both genomes being compared. Questions of applicability of these models are discussed.

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Cites work

• A variational problem for random Young tableaux
• An Extension of the String-to-String Correction Problem
• scientific article; zbMATH DE number 3126031 (Why is no real title available?)
• Shuffling Cards and Stopping Times
• Strong uniform times and finite random walks

Cited in

(5)

• Stochastic models for heterogeneous DNA sequences
• Shuffling chromosomes
• Rearrangements in phylogenetic inference: compare, model, or encode?
• The Emperor Has No Caps! A Comparison of DCJ and Algebraic Distances
• Comparative Genomics

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