Method for automatically modeling gene line and transcriptional regulation relationship

Abstract

The invention discloses a method for automatically modeling a gene line and transcriptional regulation relationship. The method comprises the following steps: generating an alternative mathematical model set according to a group of keywords, wherein each model is defined by a combination of different keywords; for the generated model, performing parameter estimation by utilizing characterization data given by a user; selecting the model with the minimum AIC from the alternative mathematical model set as an optimal model; and outputting the selected optimal model in a synthetic biology standardformat. According to the method, the steps of repeated trial and error and parameter estimation of the mathematical model are simplified, so that a synthetic biologist is liberated from tedious modeldetails, the construction speed of a gene line can be increased, and meanwhile, the understanding of a transcription regulation and control network is deepened, so that the research on complex diseases is facilitated.

Description

technical field [0001] The invention relates to the technical field of automatic modeling of biological components, in particular to a method for automatically modeling genetic circuits (Genetic Circuits) and transcriptional regulatory relationships. Background technique [0002] The study of complex phenotypes relies on an understanding of intergenic regulation. The regulatory mechanism among genes is complex and diverse, and gene expression itself is often affected by internal noise and external environment, so it is extremely challenging to construct a genome-wide gene regulation model. The success of synthetic biology in simulating biological systems provides a novel entry point for studying the response of nonlinear regulation. Since the founding stage of synthetic biology, that is, when the work on the synthetic repressor (Repressilator) and toggle switch (Toggle-switch) was published, quantitative models have provided great help for people to understand synthetic bio...

AI Technical Summary

Problems solved by technology

[0005]In short, the existing automated modeling methods have certain limitations, such as the constructed model has no biological interpretability, and cannot be used for double-input and multi-input logic gates. modeling, and the inability to model based on steady-state data, etc.

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