Multi-scale approach for simulating time-delay biochemical reaction systems

This study presents a multi-scale approach for simulating time-delay biochemical reaction systems when there are wide ranges of molecular numbers. The authors construct a new efficient approach based on partitioning into slow and fast subsets in conjunction with predictor–corrector methods. This mul...

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Bibliographic Details
Published in:IET systems biology Vol. 9; no. 1; pp. 31 - 38
Main Authors: Niu, Yuanling, Burrage, Kevin, Zhang, Chengjian
Format: Journal Article
Language:English
Published: England The Institution of Engineering and Technology 01.02.2015
Subjects:
Algorithms
Biochemistry
biological techniques
Biology
Computational efficiency
Computer Simulation
Delay
delay stochastic simulation algorithm
delays
Mathematical models
method accuracy
Models, Biological
Models, Chemical
modified next reaction method
multiscale approach
numerical testing
Partitioning
predictor‐corrector methods
Proteins - chemistry
Proteins - metabolism
Signal Transduction - physiology
systems biology
time‐delay biochemical reaction systems
systems biology
numerical testing
modified next reaction method
time-delay biochemical reaction systems
computational efficiency
multiscale approach
predictor–corrector methods
delays
biochemistry
method accuracy
delay stochastic simulation algorithm
biological techniques
predictor-corrector methods
ISSN:1751-8849, 1751-8857
Online Access:Get full text
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Summary:This study presents a multi-scale approach for simulating time-delay biochemical reaction systems when there are wide ranges of molecular numbers. The authors construct a new efficient approach based on partitioning into slow and fast subsets in conjunction with predictor–corrector methods. This multi-scale approach is shown to be much more efficient than existing methods such as the delay stochastic simulation algorithm and the modified next reaction method. Numerical testing on several important problems in systems biology confirms the accuracy and computational efficiency of this approach.
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ISSN:1751-8849
1751-8857
DOI:10.1049/iet-syb.2013.0023