A protein post-translational modification localization method and system

A post-translational modification and positioning method technology, applied in special data processing applications, instruments, electrical digital data processing, etc., can solve the problems of not supporting user-specified arbitrary modification, slow positioning speed, etc., to improve positioning speed, reduce space, The effect of improving time efficiency

Active Publication Date: 2017-05-03
INST OF COMPUTING TECH CHINESE ACAD OF SCI
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Problems solved by technology

[0004] To sum up, the existing modification positioning technology either does not support user-specified arbitrary modification, or although it supports user-specified arbitrary modification, the positioning speed is very slow

Method used

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  • A protein post-translational modification localization method and system
  • A protein post-translational modification localization method and system

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Embodiment Construction

[0045] In order to have a clearer understanding of the technical features, purposes and effects of the present invention, the specific implementation manners of the present invention will now be described with reference to the accompanying drawings.

[0046] According to an embodiment of the present invention, a method for locating protein post-translational modifications is provided.

[0047] refer to figure 1 In general, the method may include: the first step, according to the variable modification specified by the user, establishing an index table of the total mass of modification and the corresponding modification combination; the second step, for the protein sequence to be mapped and its corresponding spectrum According to the mass difference between the experimental and theoretical precursor ions, query the index table and obtain the modification combination corresponding to the mass difference; the third step is to construct a directed acyclic graph according to the spe...

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Abstract

The invention provides a protein post-translational modification positioning method, which comprises the following steps that: for a protein sequence, the total mass of generated modification is calculated, and one or a plurality of modification combinations corresponding to the total mass are obtained; one or a plurality of modification sets corresponding to each amino acid on the protein sequence are used as vertexes in a graph; the vertexes are connected according to one or a plurality of modification combinations; and the weight values of the vertexes are set according to a spectrogram corresponding to the protein sequence, wherein each modification set is a set of modifications capable of being generated from the first amino acid of the protein sequence to the corresponding amino acid and is a subset of one modification combination in one or a plurality of modification combinations. The method also comprises the steps of selecting a path in the graph according to the weight values of all of the vertexes on the path, and converting the path into modification site information. The protein post-translational modification positioning method has the advantages that the positioning speed on modification sites is accelerated, and meanwhile, any modification specified by users is supported.

Description

technical field [0001] The present invention relates to the field of bioinformatics, and more specifically, to a method and system for positioning protein post-translational modifications. Background technique [0002] In the field of computational proteomics based on mass spectrometry technology, the commonly used protein identification method is the "bottom-up (Bottom-up, BU)" database search algorithm, that is, to identify enzyme-cut peptides first, and then according to the identified peptides inferred protein. Although this method is simple and easy to operate and has high sensitivity and throughput, some information of the original protein is lost during the digestion process of the peptide, and the original protein can be deduced directly from the identified peptide due to lack of information. factors, and some identified proteins have only a few peptides, and the protein sequence coverage is low, especially for those with multiple post-translational modifications (t...

Claims

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): G06F19/10
Inventor 罗兰孙瑞祥迟浩贺思敏
Owner INST OF COMPUTING TECH CHINESE ACAD OF SCI
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