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Definition and Usage of Texture Feature for Biological Sequence
IEEE/ACM Transactions on Computational Biology and Bioinformatics ( IF 4.5 ) Pub Date : 2020-02-11 , DOI: 10.1109/tcbb.2020.2973084
Weiyang Chen , Weiwei Li

In recent years, sequencing technology has developed rapidly. This produces a large number of biological sequence data. Because of its importance, there have been many studies on biological sequences. However, there is still a lack of an effective quantitative method for defining and calculating texture features of biological sequences. Texture is an important visual feature. It is generally used to describe the spatial arrangement of intensities of images. Here we defined the texture features of biological sequence. Combining the digital coding of biological sequence with the calculation method of image texture features, we defined the texture features of biological sequence and designed the calculation method. We applied this method to DNA sequence features quantification and analysis. Using these quantified features, we can compute the similarity distance matrix of DNA sequences and construct the phylogenetic relationships based on the clustering of the quantified features. This method can be applied to analyze any biological sequence, and all biological sequences can be digitally coded and texture features can be calculated by this method. This is a novel study of biological sequence texture features. This will usher in a new era of quantitative and mathematical calculation of biological sequence features.

中文翻译:

生物序列纹理特征的定义和使用

近年来,测序技术发展迅速。这产生了大量的生物序列数据。由于其重要性,已经有许多关于生物序列的研究。然而,目前还缺乏一种有效的定量方法来定义和计算生物序列的纹理特征。纹理是一个重要的视觉特征。它通常用于描述图像强度的空间排列。这里我们定义了生物序列的纹理特征。将生物序列的数字编码与图像纹理特征的计算方法相结合,定义了生物序列的纹理特征并设计了计算方法。我们将此方法应用于 DNA 序列特征量化和分析。使用这些量化的特征,我们可以计算DNA序列的相似距离矩阵,并基于量化特征的聚类构建系统发育关系。该方法可以应用于任何生物序列的分析,所有生物序列都可以通过该方法进行数字编码和纹理特征的计算。这是对生物序列纹理特征的新研究。这将迎来生物序列特征定量和数学计算的新时代。这是对生物序列纹理特征的新研究。这将迎来生物序列特征定量和数学计算的新时代。这是对生物序列纹理特征的新研究。这将迎来生物序列特征定量和数学计算的新时代。
更新日期:2020-02-11
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