生物学序列的语言学方法。

D B Searls
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引用次数: 97

摘要

生物学家长期以来一直使用语言隐喻来描述和命名涉及核酸和蛋白质序列的细胞过程。事实上,用这些术语来看待遗传“文本”及其顺序音译是非常自然的。然而,隐喻不是一种工具,有必要问一下,用于分析其他类型语言(如人类语言和计算机语言)的技术,在解决分子生物学问题时是否真的有任何用处。本文综述了作者和其他人在将计算语言学方法应用于生物序列方面的工作。
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Linguistic approaches to biological sequences.

Biologists have long made use of linguistic metaphors in describing and naming cellular processes involving nucleic acid and protein sequences. Indeed, it is very natural to view the genetic 'text' and its sequential transliterations in these terms. However, a metaphor is not a tool, and it is necessary to ask whether the techniques used in analyzing other kinds of languages, such as human and computer languages, can in fact be of any use in tackling problems in molecular biology. This paper reviews the work of the author and others in applying the methods of computational linguistics to biological sequences.

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A genetic algorithm for multiple molecular sequence alignment. Displaying the information contents of structural RNA alignments: the structure logos. Q-RT-PCR: data analysis software for measurement of gene expression by competitive RT-PCR. SS3D-P2: a three dimensional substructure search program for protein motifs based on secondary structure elements. XDOM, a graphical tool to analyse domain arrangements in any set of protein sequences.
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