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IMPORTANCE SAMPLING AND THE TWO-LOCUS MODEL WITH SUBDIVIDED POPULATION STRUCTURE.

Robert C Griffiths1, Paul A Jenkins, Yun S Song

  • 1University of Oxford.

Advances in Applied Probability
|November 26, 2009
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Summary
This summary is machine-generated.

This study extends the diffusion-generator approximation for constructing importance sampling distributions to population genetics models. The new method provides more accurate sampling distributions for the two-locus neutral coalescent model with recombination.

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Area of Science:

  • Population Genetics
  • Computational Biology
  • Statistical Genetics

Background:

  • Importance sampling is crucial for constructing proposal distributions in complex models.
  • The diffusion-generator approximation technique offers a robust method for this purpose.
  • Its application in population genetics, particularly for coalescent models, requires further exploration.

Purpose of the Study:

  • To extend the diffusion-generator approximation technique to the neutral coalescent model with recombination.
  • To derive novel importance sampling distributions for the two-locus model.
  • To evaluate these distributions in both single and subdivided population structures.

Main Methods:

  • Application of the diffusion-generator approximation technique to the neutral coalescent model.
  • Derivation of approximate sampling distributions for the two-locus model.
  • Comparison with existing methods, including those by Fearnhead and Donnelly (2001).

Main Results:

  • Novel sampling distributions were obtained for the two-locus neutral coalescent model with recombination.
  • The derived distributions were analyzed for both single and subdivided population structures.
  • For the infinitely-many-alleles model, the new approximate distributions showed improved accuracy compared to prior methods.

Conclusions:

  • The diffusion-generator approximation is effectively extended to handle recombination in population genetics models.
  • The novel distributions offer a more accurate alternative for importance sampling in two-locus coalescent analyses.
  • This advancement has implications for inferring population genetic parameters from molecular data.