Literature DB >> 22859863

CLOSED-FORM ASYMPTOTIC SAMPLING DISTRIBUTIONS UNDER THE COALESCENT WITH RECOMBINATION FOR AN ARBITRARY NUMBER OF LOCI.

Anand Bhaskar1, Yun S Song.   

Abstract

Obtaining a closed-form sampling distribution for the coalescent with recombination is a challenging problem. In the case of two loci, a new framework based on asymptotic series has recently been developed to derive closed-form results when the recombination rate is moderate to large. In this paper, an arbitrary number of loci is considered and combinatorial approaches are employed to find closed-form expressions for the first couple of terms in an asymptotic expansion of the multi-locus sampling distribution. These expressions are universal in the sense that their functional form in terms of the marginal one-locus distributions applies to all finite- and infinite-alleles models of mutation.

Entities:  

Year:  2012        PMID: 22859863      PMCID: PMC3409093          DOI: 10.1239/aap/1339878717

Source DB:  PubMed          Journal:  Adv Appl Probab        ISSN: 0001-8678            Impact factor:   0.690


  15 in total

1.  Estimation of population parameters and recombination rates from single nucleotide polymorphisms.

Authors:  R Nielsen
Journal:  Genetics       Date:  2000-02       Impact factor: 4.562

2.  Two-locus sampling distributions and their application.

Authors:  R R Hudson
Journal:  Genetics       Date:  2001-12       Impact factor: 4.562

3.  Estimating recombination rates from population genetic data.

Authors:  P Fearnhead; P Donnelly
Journal:  Genetics       Date:  2001-11       Impact factor: 4.562

4.  A coalescent-based method for detecting and estimating recombination from gene sequences.

Authors:  Gil McVean; Philip Awadalla; Paul Fearnhead
Journal:  Genetics       Date:  2002-03       Impact factor: 4.562

5.  AN ASYMPTOTIC SAMPLING FORMULA FOR THE COALESCENT WITH RECOMBINATION.

Authors:  Paul A Jenkins; Yun S Song
Journal:  Ann Appl Probab       Date:  2010-06       Impact factor: 1.872

6.  Closed-form two-locus sampling distributions: accuracy and universality.

Authors:  Paul A Jenkins; Yun S Song
Journal:  Genetics       Date:  2009-09-07       Impact factor: 4.562

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

Authors:  Robert C Griffiths; Paul A Jenkins; Yun S Song
Journal:  Adv Appl Probab       Date:  2008-06-01       Impact factor: 0.690

8.  Ancestral inference from samples of DNA sequences with recombination.

Authors:  R C Griffiths; P Marjoram
Journal:  J Comput Biol       Date:  1996       Impact factor: 1.479

9.  The sampling distribution of linkage disequilibrium under an infinite allele model without selection.

Authors:  R R Hudson
Journal:  Genetics       Date:  1985-03       Impact factor: 4.562

10.  The fine-scale structure of recombination rate variation in the human genome.

Authors:  Gilean A T McVean; Simon R Myers; Sarah Hunt; Panos Deloukas; David R Bentley; Peter Donnelly
Journal:  Science       Date:  2004-04-23       Impact factor: 47.728

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  7 in total

1.  Partitioning, duality, and linkage disequilibria in the Moran model with recombination.

Authors:  Mareike Esser; Sebastian Probst; Ellen Baake
Journal:  J Math Biol       Date:  2015-11-06       Impact factor: 2.259

2.  Inferring Demographic History Using Two-Locus Statistics.

Authors:  Aaron P Ragsdale; Ryan N Gutenkunst
Journal:  Genetics       Date:  2017-04-16       Impact factor: 4.562

3.  APPROXIMATE SAMPLING FORMULAS FOR GENERAL FINITE-ALLELES MODELS OF MUTATION.

Authors:  Anand Bhaskar; John A Kamm; Yun S Song
Journal:  Adv Appl Probab       Date:  2012-06       Impact factor: 0.690

4.  Two-Locus Likelihoods Under Variable Population Size and Fine-Scale Recombination Rate Estimation.

Authors:  John A Kamm; Jeffrey P Spence; Jeffrey Chan; Yun S Song
Journal:  Genetics       Date:  2016-05-10       Impact factor: 4.562

5.  Solving the migration-recombination equation from a genealogical point of view.

Authors:  F Alberti; E Baake; I Letter; S Martínez
Journal:  J Math Biol       Date:  2021-03-27       Impact factor: 2.259

6.  TRACTABLE DIFFUSION AND COALESCENT PROCESSES FOR WEAKLY CORRELATED LOCI.

Authors:  Paul A Jenkins; Paul Fearnhead; Yun S Song
Journal:  Electron J Probab       Date:  2016-06-04       Impact factor: 1.151

7.  Genome-wide fine-scale recombination rate variation in Drosophila melanogaster.

Authors:  Andrew H Chan; Paul A Jenkins; Yun S Song
Journal:  PLoS Genet       Date:  2012-12-20       Impact factor: 5.917

  7 in total

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