Detecting Signatures of Selection from DNA Sequences Using Datamonkey
Detecting Signatures of Selection from DNA Sequences Using Datamonkey
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DOI：
10.1007/978-1-59745-251-9_8
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发表时间：
2009-01-01
期刊：
影响因子：
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通讯作者：
Pond, Sergei L. Kosakovsky
中科院分区：
文献类型：
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作者：
Poon, Art F. Y.;Frost, Simon D. W.;Pond, Sergei L. Kosakovsky
自然选择是影响所有进化人口的基本过程。在最简单的情况下，正向选择增加了相对于群体其余部分赋予健康优势的等位基因的频率，或增加了群体的遗传多样性，而负选择消除了那些有害的等位基因。基于密码子的分子进化模型能够通过估计同义替换(DS)和非同义替换(DN)的相对比率来从同源序列的比对中推断选择的特征。Datamonkey(http://www.datamonkey.org))为一系列最先进的统计技术提供了一个用户友好的网络界面，用于估计DS和DN并识别所选的密码子和谱系，即使在存在重组序列的情况下也是如此。
Natural selection is a fundamental process affecting all evolving populations. In the simplest case, positive selection increases the frequency of alleles that confer a fitness advantage relative to the rest of the population, or increases its genetic diversity, and negative selection removes those alleles that are deleterious. Codon-based models of molecular evolution are able to infer signatures of selection from alignments of homologous sequences by estimating the relative rates of synonymous (dS) and non-synonymous substitutions (dN). Datamonkey (http://www.datamonkey.org) provides a user-friendly web interface to a wide collection of state-of-the-art statistical techniques for estimating dS and dN and identifying codons and lineages under selection, even in the presence of recombinant sequences.