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PMID: 14663152 Published · ppublish English Journal Article Research Support, U.S. Gov't, P.H.S.

Markov chain Monte Carlo without likelihoods.

Marjoram P, Molitor J, Plagnol V, Tavare S

Abstract

Many stochastic simulation approaches for generating observations from a posterior distribution depend on knowing a likelihood function. However, for many complex probability models, such likelihoods are either impossible or computationally prohibitive to obtain. Here we present a Markov chain Monte Carlo method for generating observations from a posterior distribution without the use of likelihoods. It can also be used in frequentist applications, in particular for maximum-likelihood estimation. The approach is illustrated by an example of ancestral inference in population genetics. A number of open problems are highlighted in the discussion.

MeSH Terms
Algorithms Biological Evolution Computer Simulation DNA/genetics DNA, Mitochondrial/genetics Genetics, Population Humans Likelihood Functions Markov Chains Models, Biological Monte Carlo Method Stochastic Processes
Chemicals
DNA, Mitochondrial DNA
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Marjoram Paul
Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.
Molitor John
Plagnol Vincent
Tavare Simon
References (9)
9 references, click to expand
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Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
Published
2003-12-23
Epub
2003-00-08
Pages
15324-8
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC307566
Subset
IM
Grants
NIGMS NIH HHS · GM58897 · United States
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