Cookies on this website
We use cookies to ensure that we give you the best experience on our website. If you click 'Continue' we'll assume that you are happy to receive all cookies and you won't see this message again. Click 'Find out more' for information on how to change your cookie settings.

There is growing interest in the use of haplotype-based methods for detecting recent selection. Here, we describe a method that uses a sliding window to estimate similarity among the haplotypes associated with any given single-nucleotide polymorphism (SNP) allele. We used simulations of natural selection to provide estimates of the empirical power of the method to detect recently selected alleles and found it to be comparable in power to the popular long-range haplotype test and more powerful than methods based on nucleotide diversity. We then applied the method to a recently selected allele--the sickle mutation at the HBB locus--and found it to have a signal of selection that was significantly stronger than that of simulated models both with and without strong selection. Using this method, we also evaluated >4,000 SNPs on chromosome 20, indicating the applicability of the method to regional data sets.

Original publication

DOI

10.1086/499252

Type

Journal article

Journal

American journal of human genetics

Publication Date

01/2006

Volume

78

Pages

153 - 159

Addresses

Wellcome Trust Centre for Human Genetics, Oxford, United Kingdom. neil.hanchard@green-oxford.com

Keywords

Chromosomes, Human, Pair 20, Humans, Genetics, Population, Haplotypes, Polymorphism, Single Nucleotide, Alleles, Computer Simulation, Genetic Variation, Selection, Genetic