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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 印南, 秀樹 TESHIMA, Kosuke M INNAN, Hideki © 2009 Teshima and Innan; licensee BioMed Central Ltd application/pdf Background 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. Results 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. Conclusion mbs provides opportunities to investigate the effect of any mode of selection on the pattern of SNPs under various demography. BioMed Central 2009-05-30 eng journal article VoR https://ir.soken.ac.jp/records/3301 19480708 https://doi.org/10.1186/1471-2105-10-166 10.1186/1471-2105-10-166 http://www.biomedcentral.com/about/license Copyright 14712105 BMC Bioinformatics BMC Bioinformatics 10 https://ir.soken.ac.jp/record/3301/files/1471-2105-10-166.pdf application/pdf 239.5 kB 2014-03-11