AN EVOLUTIONARY MODEL FOR MAXIMUM-LIKELIHOOD ALIGNMENT OF DNA-SEQUENCES
AN EVOLUTIONARY MODEL FOR MAXIMUM-LIKELIHOOD ALIGNMENT OF DNA-SEQUENCES
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DOI：
10.1007/bf02193625
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发表时间：
1991-08-01
影响因子：
3.9
通讯作者：
FELSENSTEIN, J
中科院分区：
文献类型：
--
作者：
THORNE, JL;KISHINO, H;FELSENSTEIN, J
大多数生物序列比对算法都不是源自进化模型。因此，这些对齐算法缺乏强有力的统计基础。提出了两个 DNA 序列比对的最大似然方法。该方法基于 DNA 序列进化的统计模型，我们已经获得了明确的转移概率。进化模型还可用作估计与一对未比对 DNA 序列相关的进化参数的程序的基础。引入了一种参数估计方法，该方法考虑了两个序列之间所有可能的比对；讨论了从单一比对估计进化参数的危险。
Most algorithms for the alignment of biological sequences are not derived from an evolutionary model. Consequently, these alignment algorithms lack a strong statistical basis. A maximum likelihood method for the alignment of two DNA sequences is presented. This method is based upon a statistical model of DNA sequence evolution for which we have obtained explicit transition probabilities. The evolutionary model can also be used as the basis of procedures that estimate the evolutionary parameters relevant to a pair of unaligned DNA sequences. A parameter-estimation approach which takes into account all possible alignments between two sequences is introduced; the danger of estimating evolutionary parameters from a single alignment is discussed.