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首页> 外文期刊>Molecular and Cellular Probes: The Location, Diagnosis and Monitoring of Disease by Specific Molecules and Cell Lines >Algorithm, applications and evaluation for protein comparison by Ramanujan Fourier transform
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Algorithm, applications and evaluation for protein comparison by Ramanujan Fourier transform

机译：Ramanujan Fourier变换用于蛋白质比较的算法，应用和评估

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摘要

The amino acid sequence of a protein determines its chemical properties, chain conformation and biological functions. Protein sequence comparison is of great importance to identify similarities of protein structures and infer their functions. Many properties of a protein correspond to the low-frequency signals within the sequence. Low frequency modes in protein sequences are linked to the secondary structures, membrane protein types, and sub-cellular localizations of the proteins. In this paper, we present Ramanujan Fourier transform (RFT) with a fast algorithm to analyze the low-frequency signals of protein sequences. The RFT method is applied to similarity analysis of protein sequences with the Resonant Recognition Model (RRM). The results show that the proposed fast RFT method on protein comparison is more efficient than commonly used discrete Fourier transform (DFT). RFT can detect common frequencies as significant feature for specific protein families, and the RFT spectrum heat-map of protein sequences demonstrates the information conservation in the sequence comparison. The proposed method offers a new tool for pattern recognition, feature extraction and structural analysis on protein sequences. (C) 2015 Elsevier Ltd. All rights reserved.
机译：蛋白质的氨基酸序列决定其化学性质，链构象和生物学功能。蛋白质序列比较对于鉴定蛋白质结构的相似性并推断其功能非常重要。蛋白质的许多特性对应于序列中的低频信号。蛋白质序列中的低频模式与蛋白质的二级结构，膜蛋白质类型和亚细胞定位有关。在本文中，我们提出了一种Ramanujan傅里叶变换（RFT），它具有一种快速算法来分析蛋白质序列的低频信号。 RFT方法应用于具有共振识别模型（RRM）的蛋白质序列的相似性分析。结果表明，所提出的蛋白质比较快速RFT方法比常用的离散傅里叶变换（DFT）更有效。 RFT可以检测到常见频率作为特定蛋白质家族的重要特征，并且蛋白质序列的RFT光谱热图证明了序列比较中的信息保守性。该方法为蛋白质序列的模式识别，特征提取和结构分析提供了一种新工具。 （C）2015 Elsevier Ltd.保留所有权利。

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