Ployglutamine pathogenesis analyzing method

A polyglutamine and analysis method technology, applied in the field of analysis of the pathogenic mechanism of polyglutamine, can solve the problems of slow analysis convergence speed and the like, and achieve the effects of accelerating the convergence speed and accelerating the convergence speed.

Active Publication Date: 2014-07-02
SHENZHEN INST OF ADVANCED TECH CHINESE ACAD OF SCI
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Problems solved by technology

[0008] The technical problem to be solved by the present invention lies in the slow convergence speed of the analysis of the pathogenic mechanism of polyglutamine in the prior art

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  • Ployglutamine pathogenesis analyzing method
  • Ployglutamine pathogenesis analyzing method
  • Ployglutamine pathogenesis analyzing method

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Embodiment

[0049] Such as figure 2 As shown, the method for analyzing the pathogenic mechanism of polyglutamine provided by the embodiments of the present invention comprises the following steps,

[0050] S1. Select protein model: two-dimensional full-point HP model;

[0051]In the above HP model, the protein chain is composed of two types of amino acid sequences, namely hydrophilic amino acids (represented by P) and hydrophobic amino acids (represented by H), each amino acid is defined as a node, P is represented by a white ball, H Represented by black balls.

[0052] Among them, the legal protein chain spatial configuration must meet the following three conditions:

[0053] ①. Each node in the sequence must be on the integer coordinates of the two-dimensional space;

[0054] ②. Each node in the sequence can extend a unit distance to the left or right in addition to extending a unit distance to its predecessor node;

[0055] ③. At most one node can be placed on each integer grid po...

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Abstract

The invention relates to a ployglutamine pathogenesis analyzing method which includes the following steps of S1, selecting a protein model which is a two-dimensional integral HP model; S2, determining an energy function; S3, searching for a protein two-dimensional structure with the minimum free energy, namely, searching for a two-dimensional structure corresponding to protein with the minimum energy by the adoption of MPI parallel algorithm of a peer-to-peer mode. Compared with the prior art, individual temperatures of the structure are determined through the sequence of individuals in a polyglutamine protein structure group, higher temperature is distributed to the inferior individuals so that the inferior individuals are more likely to change into the superior individuals, and meanwhile, by means of cooling factors, convergence speed is increased in a parallel mode.

Description

【Technical field】 [0001] The invention relates to bioinformatics, in particular to a method for analyzing the pathogenic mechanism of polyglutamine based on a parallel population simulated annealing algorithm. 【Background technique】 [0002] Polyglutamine (polyQ) disease is a nervous system dysfunction disease caused by abnormal repeat expansion of trinucleotide CAG gene leading to polyglutamine protein. There are nine types of polyglutamine diseases, and the causative proteins and corresponding genes are different, but their common feature is the formation of insoluble protein aggregates in the brain cells of patients, with a common polyglutamine (polyQ ) fragment. [0003] How polyglutamine proteins misfold and aggregate, leading to disease remains to be understood. Like most other neurodegenerative diseases (eg, Alzheimer's disease), polyglutamine disease is associated with misfolding of polyglutamine proteins. When the length of polyglutamine protein reaches 35-40 ami...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/10
Inventor 彭丰斌魏彦杰张慧玲
Owner SHENZHEN INST OF ADVANCED TECH CHINESE ACAD OF SCI
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