- THIS ARTICLE
- Full Text
- Full Text (PDF)
-
All Versions of this Article:
genetics.106.056242v1
173/3/1725 most recent - Alert me when this article is cited
- Alert me if a correction is posted
- SERVICES
- Email this article to a friend
- Similar articles in this journal
- Similar articles in PubMed
- Alert me to new issues of the journal
- Download to citation manager
- Reprints & Permissions
- CITING ARTICLES
- Citing Articles via HighWire
- Citing Articles via Google Scholar
- GOOGLE SCHOLAR
- Articles by Innan, H.
- Search for Related Content
- PUBMED
- PubMed Citation
- Articles by Innan, H.
Originally published as Genetics Published Articles Ahead of Print on April 19, 2006.
Genetics, Vol. 173, 1725-1733, July 2006, Copyright © 2006
doi:10.1534/genetics.106.056242
Modified Hudson–Kreitman–Aguadé Test and Two-Dimensional Evaluation of Neutrality Tests
Hideki Innan1
Human Genetics Center, School of Public Health, University of Texas Health Science Center, Houston, Texas 77030
1 Address for correspondence: Department of Biosystems Science, Graduate University for Advanced Studies, Hayama, Kanagawa 240-0193, Japan.
E-mail: innan_hideki{at}soken.ac.kp
There are a number of polymorphism-based statistical tests of neutrality, but most of them focus on either the amount or the pattern of polymorphism. In this article, a new test called the two-dimensional (2D) test is developed. This test evaluates a pair of summary statistics in a two-dimentional field. One statistic should summarize the pattern of polymorphism, while the other could be a measure of the level of polymorphism. For the latter summary statistic, the polymorphism-divergence ratio is used following the idea of the Hudson–Kreitman–Aguadé (HKA) test. To incorporate the HKA test in the 2D test, a summary statistic-based version of the HKA test is developed such that the polymorphism–divergence ratio at a particular region of interest is examined if it is consistent with the average of those in other independent regions.
This article has been cited by other articles:
 |
|
 |
|
  T. Miyake, N. Takebayashi, and D. E. Wolf Possible Diversifying Selection in the Imprinted Gene, MEDEA, in Arabidopsis Mol. Biol. Evol., April 1, 2009; 26(4): 843 - 857. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 H. Innan and Y. Kim Detecting Local Adaptation Using the Joint Sampling of Polymorphism Data in the Parental and Derived Populations Genetics, July 1, 2008; 179(3): 1713 - 1720. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Zeng, S. Shi, and C.-I Wu Compound Tests for the Detection of Hitchhiking Under Positive Selection Mol. Biol. Evol., August 1, 2007; 24(8): 1898 - 1908. [Abstract] [Full Text] [PDF]
|
|
|