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Protein biological network motif identification method integrating topological attributes and functions

A biological network and motif recognition technology, applied in the field of systems biology, can solve the problems of false positives in protein interaction data and incomplete protein interaction data, and achieve simple results.

Active Publication Date: 2014-01-15
HUNAN UNIV
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Problems solved by technology

First, the current protein interaction data for each species is incomplete; second, there are a large number of false positives in the protein interaction data, especially the data obtained from large-scale high-throughput experiments

Method used

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  • Protein biological network motif identification method integrating topological attributes and functions
  • Protein biological network motif identification method integrating topological attributes and functions
  • Protein biological network motif identification method integrating topological attributes and functions

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Embodiment 1

[0035] 1. Motif recognition model of protein biological network based on integrated topological properties and functions

[0036] The present invention defines the biological network motif as: comprehensively assessing the biological significance of the protein pair by integrating the edge aggregation coefficient and the semantic similarity of the GO phrase, and then removing the biologically non-significant edge according to the size of the value. The small-scale connected subgraphs found in the graph.

[0037] In order to clearly describe the protein biological network motif recognition model based on the integration of topological properties and functions, the inventors define the model as follows:

[0038] A measure of the biological significance value of protein pairs is proposed here p c , its expression is as follows:

[0039] p c ( u , v ) = ...

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Abstract

The invention discloses a protein biological network motif identification method integrating topological attributes and functions. The protein biological network motif identification method integrating the topological attributes and functions (Ecc-GOSS) is based on the biology significance of a motif, and comprehensively evaluates the biological significance of protein-protein interaction by integrating edge clustering coefficients and semantic similarity of GO phrases. The protein biological network motif identification method integrating the topological attributes and functions is easy to implement, a great amount of network motifs with biological significance can be identified accurately according to PPI information and gene ontology information, and the protein biological network motif identification method integrating the topological attributes and functions has good robustness on high-percentage false positive prevailing among the large-scale data of the protein-protein interaction.

Description

technical field [0001] The invention belongs to the field of systems biology, and relates to a protein biological network motif recognition method integrating topology attributes and functions. Background technique [0002] In the post-genomic era, in order to better understand the mechanism of biomolecular interaction and operation, the main goal of functional genomics research is to identify and analyze molecular interactions in the cellular environment. Protein interaction is a specific type of molecular interaction, which plays a central role in biological processes such as transmitting signals, building molecular machines, and participating in enzyme reactions. In recent years, with the development of high-throughput proteomic technologies, the available protein interaction data has grown rapidly. Protein interactions constructed as undirected graphs (where vertices correspond to proteins and edges correspond to interactions between proteins) facilitate understanding t...

Claims

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Application Information

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IPC IPC(8): G06F19/18G06F17/30
Inventor 骆嘉伟李光辉王伟胜江海刘智明蔡洁
Owner HUNAN UNIV
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