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环形螺旋状曲线：生物序列分析与比较的有效工具

Circular Helix-Like Curve: An Effective Tool of Biological Sequence Analysis and Comparison.

作者信息

Li Yushuang, Xiao Wenli

机构信息

College of Science, Yanshan University, Qinhuangdao 066004, China.

出版信息

Comput Math Methods Med. 2016;2016:3262813. doi: 10.1155/2016/3262813. Epub 2016 Jun 14.

DOI:10.1155/2016/3262813
PMID:27403205
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC4923644/
Abstract

This paper constructed a novel injection from a DNA sequence to a 3D graph, named circular helix-like curve (CHC). The presented graphical representation is available for visualizing characterizations of a single DNA sequence and identifying similarities and differences among several DNAs. A 12-dimensional vector extracted from CHC, as a numerical characterization of CHC, was applied to analyze phylogenetic relationships of 11 species, 74 ribosomal RNAs, 48 Hepatitis E viruses, and 18 eutherian mammals, respectively. Successful experiments illustrated that CHC is an effective tool of biological sequence analysis and comparison.

摘要

本文构建了一种从DNA序列到三维图形的新型映射，称为类圆形螺旋曲线（CHC）。所呈现的图形表示可用于可视化单个DNA序列的特征，并识别多个DNA之间的异同。从CHC中提取的12维向量，作为CHC的数值特征，分别应用于分析11个物种、74个核糖体RNA、48个戊型肝炎病毒和18个真兽类哺乳动物的系统发育关系。成功的实验表明，CHC是生物序列分析和比较的有效工具。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/3750860d1033/CMMM2016-3262813.010.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/d939e5a9837c/CMMM2016-3262813.001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/287d1b55d0d6/CMMM2016-3262813.002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/1a2798b7121c/CMMM2016-3262813.003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/9601251aae1c/CMMM2016-3262813.004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/69b8a080f335/CMMM2016-3262813.005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/6701246571aa/CMMM2016-3262813.006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/a765d78fd507/CMMM2016-3262813.007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/cea6d581208a/CMMM2016-3262813.008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/bd9b5dba975a/CMMM2016-3262813.009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/3750860d1033/CMMM2016-3262813.010.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/d939e5a9837c/CMMM2016-3262813.001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/287d1b55d0d6/CMMM2016-3262813.002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/1a2798b7121c/CMMM2016-3262813.003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/9601251aae1c/CMMM2016-3262813.004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/69b8a080f335/CMMM2016-3262813.005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/6701246571aa/CMMM2016-3262813.006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/a765d78fd507/CMMM2016-3262813.007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/cea6d581208a/CMMM2016-3262813.008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/bd9b5dba975a/CMMM2016-3262813.009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/1a83/4923644/3750860d1033/CMMM2016-3262813.010.jpg

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A 2D graphical representation of the sequences of DNA based on triplets and its application.基于三联体的DNA序列的二维图形表示及其应用。
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Linear regression model of short k-word: a similarity distance suitable for biological sequences with various lengths.
短 k-字线性回归模型：一种适用于各种长度生物序列的相似性距离。
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C-curve: a novel 3D graphical representation of DNA sequence based on codons.C 形曲线：一种基于密码子的新型 DNA 序列三维图形表示方法。
Math Biosci. 2013 Feb;241(2):217-24. doi: 10.1016/j.mbs.2012.11.009. Epub 2012 Dec 13.
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