ADAPTSITE: detecting natural selection at single amino acid sites

被引：59

作者：

Suzuki, Y ^{[1
]}

Gojobori, T

Nei, M

机构：

[1] Penn State Univ, Inst Mol Evolutionary Genet, Mueller Lab 328, University Pk, PA 16802 USA

[2] Penn State Univ, Dept Biol, Mueller Lab 328, University Pk, PA 16802 USA

[3] Natl Inst Genet, Ctr Informat Biol, Shizuoka 4118540, Japan

来源：

BIOINFORMATICS | 2001年 / 17卷 / 07期

基金：

日本学术振兴会; 美国国家卫生研究院;

关键词：

D O I：

10.1093/bioinformatics/17.7.660

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

ADAPTSITE is a program package for detecting natural selection at single amino acid sites, using a multiple alignment of protein-coding sequences for a given phylogenetic tree. The program infers ancestral codons at all interior nodes, and computes the total numbers of synonymous (c(S)) and nonsynonymous (c(N)) substitutions as well as the average numbers of synonymous (s(S)) and nonsynonymous (s(N)) sites for each colon site. The probabilities of occurrence of synonymous and nonsynonymous substitutions are approximated by s(S)/(s(S)+s(N)) and s(N)/(s(S)+s(N)), respectively. The null hypothesis of selective neutrality is tested for each codon site, assuming a binomial distribution for the probability of obtaining c(S) and c(N).

引用

页码：660 / 661

页数：2

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