Database searching method and database searching system for open type protein identification

Abstract

The invention relates to a database searching method and a database searching system for open type protein identification. The database searching method comprises the steps of step 1, inputting protein sequences, simulating and splitting each protein sequence, ranking all generated subsequences according to mass, generating a peptide sequence data list, and establishing an index file according to the peptide sequence data list; step 2, inputting mass spectrums, generating a search set by extracting spectrum peaks from each mass spectrum, searching the index file, and obtaining a sequence set; step 3, generating a candidate peptide fragment according to decoration and combination on each mass spectrum and the sequence set corresponding to each mass spectrum, and marking the candidate peptide fragment; step 4, integrating a marking result, inferring from the peptide fragment to protein, and obtaining an identification result. According to the database searching method disclosed by the invention, the protein identification is carried out in a way that a user is allowed not to assign the types of digestion and decoration or is allowed to assign arbitrary types among the types, and the database searching method is used for solving identification problems of digestion and decoration in the arbitrary types.

Description

technical field [0001] The invention relates to the field of biological information, in particular to a database search method and system for open protein identification. Background technique [0002] Proteomics research refers to the study of protein characteristics on a large scale, including protein expression levels, post-translational modification studies, and protein interactions. As a key technology in this field, biological mass spectrometry has developed rapidly in recent years. The qualitative and quantitative analysis of proteins using mass spectrometry data has become one of the core contents of proteomics research. Among them, the database search method is the main method for mass spectrometry data analysis in proteomics. [0003] The formation process of proteome data is more complicated. Proteins are decomposed by biological enzymes, and many sub-fragments formed are called peptides or peptide segments. In order to be detected by the mass spectrometer, lon...

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Problems solved by technology

[0005] The purpose of the present invention is to provide an open protein identification database search method and its system, which is used to allow users not to specify the type of enzyme digestion and modification, or to specify any type of them for protein identification, so as to solve any type of enzyme digestion and Modified Identification Issues

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