Inference of Noisy Nonlinear Differential Equation Models for Gene Regulatory Networks Using Genetic Programming and Kalman Filtering

2008 ◽  
Vol 56 (7) ◽  
pp. 3327-3339 ◽  
Author(s):  
Lijun Qian ◽  
Haixin Wang ◽  
E.R. Dougherty
Keyword(s):  
Differential Equation ◽  
Genetic Programming ◽  
Nonlinear Differential Equation ◽  
Gene Regulatory Networks ◽  
Kalman Filtering ◽  
Regulatory Networks ◽  
Differential Equation Models ◽  
Gene Regulatory

Overview of Gene Regulatory Network Inference Based on Differential Equation Models

2020 ◽  
Vol 21 (11) ◽  
pp. 1054-1059
Author(s):  
Bin Yang ◽  
Yuehui Chen
Keyword(s):  
Differential Equation ◽  
Gene Regulatory Networks ◽  
Regulatory Networks ◽  
Network Inference ◽  
New Drugs ◽  
Gene Regulatory Network Inference ◽  
Ode Models ◽  
Differential Equation Models ◽  
Linear Ode ◽  
Gene Regulatory

: Reconstruction of gene regulatory networks (GRN) plays an important role in understanding the complexity, functionality and pathways of biological systems, which could support the design of new drugs for diseases. Because differential equation models are flexible androbust, these models have been utilized to identify biochemical reactions and gene regulatory networks. This paper investigates the differential equation models for reverse engineering gene regulatory networks. We introduce three kinds of differential equation models, including ordinary differential equation (ODE), time-delayed differential equation (TDDE) and stochastic differential equation (SDE). ODE models include linear ODE, nonlinear ODE and S-system model. We also discuss the evolutionary algorithms, which are utilized to search the optimal structures and parameters of differential equation models. This investigation could provide a comprehensive understanding of differential equation models, and lead to the discovery of novel differential equation models.

scholarly journals Identification of Gene Regulatory Networks by Integrating Genetic Programming With Particle Filtering

IEEE Access ◽  
2019 ◽  
Vol 7 ◽  
pp. 113760-113770 ◽  
Author(s):  
Baoshan Ma ◽  
Xiangtian Jiao ◽  
Fanyu Meng ◽  
Fengping Xu ◽  
Yao Geng ◽  
...  
Keyword(s):  
Genetic Programming ◽  
Gene Regulatory Networks ◽  
Particle Filtering ◽  
Regulatory Networks ◽  
Gene Regulatory
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