Hybrid CME–ODE method for efficient simulation of the galactose switch in yeast-Reference-Cited by-同舟云学术

Hybrid CME–ODE method for efficient simulation of the galactose switch in yeast

Published:2018-08 Issue:4 Volume:12 Page:170-176
ISSN:1751-8849
Container-title:IET Systems Biology
language:en
Short-container-title:IET syst. biol.

Author:

Bianchi David M.¹²,Peterson Joseph R.¹^ORCID,Earnest Tyler M.¹²³,Hallock Michael J.³⁴,Luthey‐Schulten Zaida¹²³⁵⁶

Affiliation:

1. Department of ChemistryUniversity of Illinois at Urbana–Champaign505 S Mathews AveUrbanaUSA

2. NSF Center for the Physics of Living Cells1110 W Green St, MC‐704, 320 Loomis LaboratoryUrbanaUSA

3. NIH Center for Macromolecular Modeling and Bioinformatics, University of Illinois at Urbana–Champaign405 N Mathews AveUrbanaUSA

4. School of Chemical SciencesUniversity of Illinois at Urbana–Champaign505 S Mathews AveUrbanaUSA

5. Center for Biophysics and Quantitative BiologyUniversity of Illinois at Urbana–Champaign1110 W Green St, MC‐704UrbanaUSA

6. Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana–Champaign405 N Mathews AveUrbanaUSA

Funder

National Science Foundation

Publisher

Institution of Engineering and Technology (IET)

Subject

Cell Biology,Genetics,Molecular Biology,Modelling and Simulation,Biotechnology

Link

https://onlinelibrary.wiley.com/doi/pdf/10.1049/iet-syb.2017.0070

Reference18 articles.

1. Lattice microbes: High-performance stochastic simulation method for the reaction-diffusion master equation

2. Simulation of reaction diffusion processes over biologically relevant size and time scales using multi-GPU workstations

3. Evaluation of Emerging Energy-Efficient Heterogeneous Computing Platforms for Biomolecular and Cellular Simulation Workloads

4. PetersonJ. R. HallockM. J. andColeJ. A.et al.: ‘A problem solving environment for stochastic biological simulations’.PyHPC'13: Proc. of the 3rd Workshop on Python for High‐Performance and Scientific Computing 2013

5. Exact stochastic simulation of coupled chemical reactions

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