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Protein identification method based on protein interaction network and proteomics

A proteomics and protein identification technology, applied in special data processing applications, instruments, electronic digital data processing, etc., can solve problems such as less consideration of shared peptides, unfavorable protein identification and quantitative analysis

Active Publication Date: 2014-11-19
CENT SOUTH UNIV
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Problems solved by technology

During protein identification, there is a situation where one peptide maps to different proteins (i.e., shared peptides), and the existing techniques rarely consider shared peptides, or do not explain the relationship between shared peptides mapped to proteins, which is not conducive to further protein identification and quantification analyze

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  • Protein identification method based on protein interaction network and proteomics
  • Protein identification method based on protein interaction network and proteomics
  • Protein identification method based on protein interaction network and proteomics

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Embodiment Construction

[0040] 1. Protein identification model based on protein interaction network and proteomics data (PPIPEP)

[0041] The present invention defines a new protein identification model PPIPEP by fusing the protein interaction network information on the shotgun proteomics data, and its model diagram is as follows figure 1 As shown, on the basis of this model, the existence probability of the protein is deduced, and the process is as follows figure 2 shown. First input a set of protein interaction data and the existence probability information of peptides. The present invention can be divided into 6 sub-processes: establishing a bipartite graph of peptide mapping protein phases, calculating the existence probability of proteins, fusing protein interaction information, calculating the support degree of neighboring protein nodes obtained by protein nodes, and iteratively adjusting shared peptide mapping The probability of reaching the protein and the existence probability of the prot...

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Abstract

The invention discloses a protein identification method based on a protein interaction network and proteomics. The method is based on the phenomenon that the existence probabilities between interaction proteins are influenced mutually. Protein interaction network information is fused with shotgun method proteomics data, a new protein identification graph model is defined, the probability of peptide mapped to the proteins is adjusted by means of the existence probability of the proteins in the graph model and the support degree of neighbor protein nodes obtained in the graph model, and therefore the existence probability of the proteins is adjusted. Most proteins can be identified through the method. Compared with other identification methods, the protein identification method based on the protein interaction network and the proteomics has high accuracy. Valuable reference information is provided for experiments for inference and identification of proteins of biologists through proteomics data and further study.

Description

technical field [0001] The invention belongs to the field of systems biology, in particular to a protein identification method based on protein interaction network and proteomics. Background technique [0002] The completion of human genome sequencing marks the advent of the post-genome era, and proteomics is one of the most important fields in the post-genome era. The purpose of proteomics is to reveal the function of genes, the relationship between proteins and the operating mechanism of life processes by systematically and quantitatively studying the expression of proteins in cell tissues. Its main tasks include: protein sequence identification, protein modification identification, protein quantitative analysis, protein structure prediction and protein function prediction, etc. It is the most basic task to determine which proteins are expressed by a certain cell organ or tissue under certain conditions one. [0003] At present, protein identification mainly adopts the r...

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Application Information

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IPC IPC(8): G06F19/00
Inventor 王建新钟坚成李敏
Owner CENT SOUTH UNIV
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