Distinguishing between selective sweeps and demography using DNA polymorphism data

Jeffrey D. Jensen, Yuseob Kim, Vanessa Bauer DuMont, Charles F. Aquadro, Carlos D. Bustamante

Research output: Contribution to journalArticle

161 Scopus citations

Abstract

In 2002 Kim and Stephan proposed a promising composite-likelihood method for localizing and estimating the fitness advantage of a recently fixed beneficial mutation. Here, we demonstrate that their composite-likelihood-ratio (CLR) test comparing selective and neutral hypotheses is not robust to undetected population structure or a recent bottleneck, with some parameter combinations resulting in a false positive rate of nearly 90%. We also propose a goodness-of-fit test for discriminating rejections due to directional selection (true positive) from those due to population and demographic forces (false positives) and demonstrate that the new method has high sensitivity to differentiate the two classes of rejections.

Original languageEnglish (US)
Pages (from-to)1401-1410
Number of pages10
JournalGenetics
Volume170
Issue number3
DOIs
StatePublished - Jul 2005
Externally publishedYes

ASJC Scopus subject areas

  • Genetics

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