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- W4385802016 abstract "Abstract Motivation Omics data and single-cell analyses have recently produced many biological informatics. These require simple, fast, and flexible numerical/analytical methods such as ordinary differential equations. However, formulating these equations and their computational processes can be expensive and imprecise for simulating reactions involving genes and a small number of molecular systems. Therefore, developing a straightforward simulation method is necessary. Results We developed a natural number simulation (NNS) method using binomial probability-based stochastic algorithms. Hence, this paper simulated one-gene systems for feedback and feed-forward reactions, allosteric biochemical reactions, and SIR-type population dynamics. Furthermore, NNS can calculate any biological reaction systems written using stoichiometric formula. Thus, NNS provides a comfortable simulation tool for the scientific and engineering fields; algorithms and applications are detailed using Python. Availability and implementation Calculation results and the program are available as supplementary information in binomial_v15.zip in https://binomial-simulation.com/en/python-program/ . Contact sato@zeon.co.jp Supplementary Information Supplementary data are available in this pdf file. Graphical Abstract" @default.
- W4385802016 created "2023-08-15" @default.
- W4385802016 creator A5036167481 @default.
- W4385802016 date "2023-08-14" @default.
- W4385802016 modified "2023-10-02" @default.
- W4385802016 title "Application of a Novel Numerical Simulation to Biochemical Reaction systems" @default.
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- W4385802016 doi "https://doi.org/10.1101/2023.08.10.552732" @default.
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