mbs: modifying Hudson's ms software to generate samples of DNA sequences with a biallelic site under selection.
mbs: modifying Hudson's ms software to generate samples of DNA sequences with a biallelic site under selection.
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DOI：
10.1186/1471-2105-10-166
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发表时间：
2009-05-30
影响因子：
3
通讯作者：
Innan H
中科院分区：
文献类型：
--
作者：
Teshima KM;Innan H
单核苷酸多态性（SNPs）的模式包含了关于物种微观进化过程机制的大量信息。对这些机制的作用的推断，包括自然选择，在很大程度上依赖于计算机模拟。当所有突变都是中性的时候，结合模拟在从一个种群（物种）中产生大量DNA序列样本方面是非常强大的，哈德逊的ms软件经常用于此目的。然而，很难将自然选择纳入合并框架。我们在此提出了一个软件应用程序，以产生样品的DNA序列时，有一个双等位基因位点的选择为目标。这个软件应用程序，简称为mbs，是通过修改哈德逊的ms开发的。mbs软件是如此灵活，它可以包括任何任意的人口规模变化的历史和任何模式的选择，只要选择是在一个双等位基因位点上操作。mbs提供了研究各种人口统计学下任何选择模式对SNP模式的影响的机会。
The pattern of single nucleotide polymorphisms, or SNPs, contains a tremendous amount of information with respect to the mechanisms of the micro-evolutionary process of a species. The inference of the roles of these mechanisms, including natural selection, relies heavily on computer simulations. A coalescent simulation is extremely powerful in generating a large number of samples of DNA sequences from a population (species) when all mutations are neutral, and Hudson's ms software is frequently used for this purpose. However, it has been difficult to incorporate natural selection into the coalescent framework. We herein present a software application to generate samples of DNA sequences when there is a biallelic site targeted by selection. This software application, referred to as mbs, is developed by modifying Hudson's ms. The mbs software is so flexible that it can incorporate any arbitrary histories of population size changes and any mode of selection as long as selection is operating on a biallelic site. mbs provides opportunities to investigate the effect of any mode of selection on the pattern of SNPs under various demography.
影响因子：
7
作者：
Teshima, Kosuke M.;Coop, Graham;Przeworski, Molly
通讯作者：
Przeworski, Molly
影响因子：
3.3
作者：
BRAVERMAN, JM;HUDSON, RR;STEPHAN, W
通讯作者：
STEPHAN, W
影响因子：
5.8
作者：
Hudson, RR
通讯作者：
Hudson, RR