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Updated: Jun 23, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
Published on: July 12, 2022
Alignment-free comparison of protein sequences based on reduced amino acid alphabets
Cangzhi Jia1, Tian Liu, Xiangde Zhang
1Department of Mathematics, Northeast University, Shenyang 110004, China. cangzhijia@yahoo.com.cn
Abstract:
Protein sequences are treated as stochastic processes on the basis of a reduced amino acid alphabet of 10 types of amino acids. The realization of a stochastic process is described by associated transition probability matrix that corresponds to the process uniquely. Then new distances between transition probability matrices are defined for sequences similarity analysis. Two separate datasets are prepared and tested to identify the validity of the method. The results demonstrate the new method is powerful and efficient.
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