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Literature DB >> 15890376

Stepwise mutation likelihood computation by sequential importance sampling in subdivided population models.

Maria De Iorio¹, Robert C Griffiths, Raphael Leblois, François Rousset.

Abstract

An importance sampling algorithm for computing the likelihood of a sample of genes at loci under a stepwise mutation model in a subdivided population is developed. This allows maximum likelihood estimation of migration rates between subpopulations. The time to the most recent common ancestor of the sample can also be computed. The technique is illustrated by an analysis of a data set of Australian red fox populations.

Entities: Species

Mesh：

Year: 2005 PMID： 15890376 DOI： 10.1016/j.tpb.2005.02.001

Source DB: PubMed Journal: Theor Popul Biol ISSN： 0040-5809 Impact factor: 1.570

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Cited

11 in total

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2. Topologies of the conditional ancestral trees and full-likelihood-based inference in the general coalescent tree framework.

Authors: Ori Sargsyan
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3. Fast and accurate estimation of the population-scaled mutation rate, theta, from microsatellite genotype data.

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Review 4. Understanding the origin of species with genome-scale data: modelling gene flow.

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Journal: Nat Rev Genet Date: 2013-05-09 Impact factor: 53.242

5. Genetic structure and invasion history of the house mouse (Mus musculus domesticus) in Senegal, West Africa: a legacy of colonial and contemporary times.

Authors: C Lippens; A Estoup; M K Hima; A Loiseau; C Tatard; A Dalecky; K Bâ; M Kane; M Diallo; A Sow; Y Niang; S Piry; K Berthier; R Leblois; J-M Duplantier; C Brouat
Journal: Heredity (Edinb) Date: 2017-03-29 Impact factor: 3.821

10. Joint inference of microsatellite mutation models, population history and genealogies using transdimensional Markov Chain Monte Carlo.

Authors: Chieh-Hsi Wu; Alexei J Drummond
Journal: Genetics Date: 2011-03-08 Impact factor: 4.562

Stepwise mutation likelihood computation by sequential importance sampling in subdivided population models.

1. The confounding effects of population structure, genetic diversity and the sampling scheme on the detection and quantification of population size changes.

2. Topologies of the conditional ancestral trees and full-likelihood-based inference in the general coalescent tree framework.

3. Fast and accurate estimation of the population-scaled mutation rate, theta, from microsatellite genotype data.

Review 4. Understanding the origin of species with genome-scale data: modelling gene flow.

5. Genetic structure and invasion history of the house mouse (Mus musculus domesticus) in Senegal, West Africa: a legacy of colonial and contemporary times.

6. Stopping-time resampling and population genetic inference under coalescent models.

7. Inductive determination of allele frequency spectrum probabilities in structured populations.

8. Likelihood-based inference in isolation-by-distance models using the spatial distribution of low-frequency alleles.

9. Allele frequency spectra in structured populations: Novel-allele probabilities under the labelled coalescent.

10. Joint inference of microsatellite mutation models, population history and genealogies using transdimensional Markov Chain Monte Carlo.