核酸相似性的统计分布。
The statistical distribution of nucleic acid similarities.
作者信息
Smith T F, Waterman M S, Burks C
出版信息
Nucleic Acids Res. 1985 Jan 25;13(2):645-56. doi: 10.1093/nar/13.2.645.
Abstract
All pairs of a large set of known vertebrate DNA sequences were searched by computer for most similar segments. Analysis of this data shows that the computed similarity scores are distributed proportionally to the logarithm of the product of the lengths of the sequences involved. This distribution is closely related to recent results of Erdos and others on the longest run of heads in coin tossing. A simple rule is derived for determination of statistical significance of the similarity scores and to assist in relating statistical and biological significance.
摘要
通过计算机对一大组已知脊椎动物DNA序列的所有序列对进行搜索，以寻找最相似的片段。对这些数据的分析表明，计算出的相似性得分与所涉及序列长度乘积的对数成比例分布。这种分布与埃尔德什等人最近关于抛硬币中最长正面序列的结果密切相关。推导了一个简单规则，用于确定相似性得分的统计显著性，并有助于关联统计显著性和生物学显著性。
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本文引用的文献
1
Optimal sequence alignments.最佳序列比对。
Proc Natl Acad Sci U S A. 1983 Mar;80(5):1382-6. doi: 10.1073/pnas.80.5.1382.
2
The nucleotide sequence of the ubiquitous repetitive DNA sequence B1 complementary to the most abundant class of mouse fold-back RNA.与最丰富的一类小鼠回折RNA互补的普遍存在的重复DNA序列B1的核苷酸序列。
Nucleic Acids Res. 1980 Mar 25;8(6):1201-15. doi: 10.1093/nar/8.6.1201.
3
The nucleotide sequence of the major beta-globin mRNA from Xenopus laevis.非洲爪蟾主要β-珠蛋白信使核糖核酸的核苷酸序列。
Nucleic Acids Res. 1980 Sep 25;8(18):4247-58. doi: 10.1093/nar/8.18.4247.
4
The ovalbumin gene family: structure of the X gene and evolution of duplicated split genes.卵清蛋白基因家族：X基因的结构与重复分裂基因的进化
Cell. 1980 Jul;20(3):625-37. doi: 10.1016/0092-8674(80)90309-8.
5
The structure of a human alpha-globin pseudogene and its relationship to alpha-globin gene duplication.人类α-珠蛋白假基因的结构及其与α-珠蛋白基因重复的关系。
Cell. 1980 Sep;21(2):537-44. doi: 10.1016/0092-8674(80)90491-2.
6
Structural analysis of interspersed repetitive polymerase III transcription units in human DNA.人类DNA中散布的重复聚合酶III转录单元的结构分析。
Nucleic Acids Res. 1981 Mar 11;9(5):1151-70.
7
Molecular cloning and characterization of cDNA sequences coding for rat relaxin.编码大鼠松弛素的cDNA序列的分子克隆与特性分析
Nature. 1981 May 14;291(5811):127-31. doi: 10.1038/291127a0.
8
Primary structure of the human Met- and Leu-enkephalin precursor and its mRNA.人甲硫氨酸脑啡肽和亮氨酸脑啡肽前体及其信使核糖核酸的一级结构。
Nature. 1982 Feb 25;295(5851):663-6. doi: 10.1038/295663a0.
9
Nucleotide sequence of Xenopus laevis 18S ribosomal RNA inferred from gene sequence.从基因序列推断出的非洲爪蟾18S核糖体RNA的核苷酸序列。
Nature. 1981 May 21;291(5812):205-8. doi: 10.1038/291205a0.
10
Isolation and sequence of the gene for actin in Saccharomyces cerevisiae.酿酒酵母肌动蛋白基因的分离与测序。
Proc Natl Acad Sci U S A. 1980 Jul;77(7):3912-6. doi: 10.1073/pnas.77.7.3912.
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