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A differential equation model-based gene regulation and control network construction method

A gene regulatory network and differential equation model technology, applied in the fields of biotechnology and complex network science, can solve problems such as poor practicability, poor anti-noise ability, and high complexity, and achieve the effect of reducing the high complexity

Pending Publication Date: 2019-05-07
QINGDAO UNIV
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Problems solved by technology

[0006] Defects in the existing differential equations to construct gene regulatory networks: high complexity, large amount of calculation, poor anti-noise ability, and poor practicability

Method used

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Embodiment 1

[0020] A method for constructing a gene regulatory network based on a differential equation model, comprising the following steps:

[0021] (1) Measure the gene expression of the cell cycle and specific state conditions at different time points, observe the changes of gene expression at each time point or in the cell cycle, and find regulatory genes and target genes;

[0022] (2) Obtain the time series data of gene expression, and the time series data are discretized into several expression levels using a discretization method;

[0023] (3) Setting the time delay of the gene regulation network;

[0024] (4) Use the algorithm of the differential equation model to determine the function according to the relationship between the function and its rate of change; make simple assumptions based on the purpose of modeling and problem analysis, and establish a differential equation according to internal laws or by analogy to derive genes regulatory network;

[0025] (5) Graphical dis...

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Abstract

The invention provides a differential equation model-based gene regulation and control network construction method, and relates to the field of biotechnology and complex network science, and comprisesthe following steps: measuring gene expression in a cell cycle and under a specific state condition at different time points, observing change conditions of the gene expression at each time point orin the cell cycle, and finding a regulatory gene and a target gene; Acquiring time sequence data of gene expression, and discretizing the time sequence data into a plurality of expression levels by adopting a discretization method; utilizing An iterative algorithm of an ordinary differential equation, making corresponding assumptions according to the modeling purpose and problem analysis, mining the interaction relation between genes from large-scale gene expression data, and giving a topological structure model of the gene regulation and control network; Setting time delay of a gene regulation and control network; Graphically displaying the gene regulation and control network and carrying out structure analysis; And carrying out experimental verification on the gene regulation and controlnetwork of the target gene regulation and control relationship. Through data initialization processing, the defects of high complexity and large calculation amount are weakened.

Description

technical field [0001] The invention relates to the fields of biotechnology and complex network science, in particular to a method for constructing a gene regulation network based on a differential equation model. Background technique [0002] Genes support the basic structure and performance of life. It stores all the information about race, blood type, conception, growth, apoptosis and other processes of life. The interdependence of environment and heredity plays an important role in the reproduction of life, cell division and protein synthesis and other important physiological processes. [0003] Exploring and discovering the regulatory relationship and interaction mechanism between genes is a research hotspot and frontier topic in life sciences, and inferring gene regulatory networks from gene expression data is one of its research directions. [0004] Organisms express different parts of the genome through the regulation of gene level and transcription level at differ...

Claims

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Application Information

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IPC IPC(8): G06F17/13G16B5/00
Inventor 王镇岭
Owner QINGDAO UNIV
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