Statistical methods for testing functional divergence after gene duplication
Statistical methods for testing functional divergence after gene duplication
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DOI：
10.1093/oxfordjournals.molbev.a026080
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发表时间：
1999-12-01
影响因子：
10.7
通讯作者：
Gu, X
中科院分区：
文献类型：
--
作者：
Gu, X
基因复制后的功能创新可能导致基因家族成员基因簇之间的功能约束改变。这种类型（I型）的功能分歧是通过功能分歧系数（theta（lambda））来衡量的，它可以解释为基因簇之间速率相关性的降低，或者一个位点的进化速率在两个基因簇之间统计学上独立的概率。一个简单的随机模型已被开发用于估计θ（λ）和测试其统计意义。当前模型包括站点之间的速率变化模型，作为theta（lambda）= 0时的特殊情况。此外，我们已经开发了一个位点特异性的配置文件的基础上的隐马尔可夫模型，以确定关键的氨基酸残基，负责这些功能差异的两个基因簇，这可能有很大的潜力，在功能基因组学。
Functional innovations after gene duplication may result in altered functional constraints between member gene clusters of a gene family. This type (type I) of functional divergence is measured by the coefficient of functional divergence (theta(lambda)), which can be interpreted as the decrease in rate correlation between gene clusters, or the probability that the evolutionary rate at a site is statistically independent between two gene clusters. A simple stochastic model has been developed for estimating theta(lambda) and testing its statistical significance. The current model includes the model of rate variation among sites as a special case when theta(lambda) = 0. Moreover, we have developed a site-specific profile based on the hidden Markov model to identify critical amino acid residues that are responsible for these functional differences between two gene clusters, which may have great potential in functional genomics.