Method for identifying key proteins with AFSO (artificial fish school optimization) algorithm

Abstract

The invention discloses a method for identifying key proteins with an AFSO (artificial fish school optimization) algorithm. The method comprises steps as follows: a protein-protein interaction networkis converted into an undirected graph, a purified protein-protein interaction network is constructed, RNA gene expression values corresponding to proteins, GO comment information and degrees of proteins in known compounds are obtained, edges and nodes of the purified protein-protein interaction network are treated, known key proteins are selected as initial artificial fishes, the artificial fishes execute foraging behavior, random behavior, following behavior and swarm behavior, and the key proteins are produced. According to the method, the key proteins can be identified accurately; a simulation experiment result indicates that performance of indexes such as sensitiveness, specificity, a positive predictive value, a negative predictive value and the like is better; compared with other methods for identifying the key proteins, the method has the advantages that optimizing characteristics of artificial fish schools are combined with topological characteristics of the protein-protein interaction network to realize the key protein identification process, and the accuracy rate of the key protein identification is increased.

Description

technical field [0001] The invention belongs to the field of biological information, and in particular relates to a method for identifying key proteins based on an artificial fish swarm optimization algorithm. Background technique [0002] Key proteins are the products of key genes and are an essential part of organisms to maintain life activities. The absence of key proteins will lead to the failure of life activities and even the death of organisms. The prediction and identification of key proteins is a research work of great significance. On the one hand, it helps to study the growth regulation process related to cells; on the other hand, it also has far-reaching significance for disease diagnosis and drug design. Initially, the identification of key proteins was mainly through biological experimental methods, such as single gene knockout and RNA interference. Although the identification of key proteins through these experimental techniques is accurate and effective, it ...

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Problems solved by technology

[0008] Based on the defects of the above key protein identification methods, the main reason is whether the reliability of the protein interaction network is considered, only some features are considered, and the overall and overall grasp is lacking, and the accuracy of key protein identification is low.

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