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[Mathematical modelling for cellular processes].

Yan Zhu1,2, Jibin Sun1,2,3

  • 1Systems Biology Center, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China.

Sheng Wu Gong Cheng Xue Bao = Chinese Journal of Biotechnology
|April 2, 2025
PubMed
Summary
This summary is machine-generated.

This review consolidates mathematical models for simulating cellular processes, crucial for advancing biomanufacturing and engineered organisms. It details frameworks for understanding cellular dynamics and optimizing biological production systems.

Keywords:
biomanufacturingcellular processmathematical modellingsystems biologywhole-cell model

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Area of Science:

  • Biotechnology and Synthetic Biology
  • Computational Biology and Bioinformatics
  • Biochemical Engineering

Background:

  • Biomanufacturing utilizes engineered cells for sustainable production of biochemicals, biopharmaceuticals, biofuels, and biomaterials.
  • Accurate computational models are essential for designing and constructing effective engineered cells.
  • Advances in high-throughput technologies and AI have enabled large-scale biological data acquisition, improving cellular dynamics understanding.

Purpose of the Study:

  • To systematically review mathematical frameworks used in cellular modeling.
  • To critically assess the applicability of various mathematical paradigms in different contexts.
  • To examine progress in developing integrated whole-cell models.

Main Methods:

  • Evaluation of prevalent mathematical paradigms: network topology analyses, stochastic processes, and kinetic equations.
  • Categorization of modeling strategies for specific cellular processes (growth, division, morphogenesis, DNA replication, transcription, metabolism, signal transduction, quorum sensing).
  • Review of recent advancements in whole-cell model development through integration of diverse cellular processes.

Main Results:

  • Summary of mathematical frameworks for cellular modeling, including network topology, stochastic processes, and kinetic equations.
  • Categorization of modeling approaches for key cellular functions.
  • Discussion of integrated whole-cell modeling strategies.

Conclusions:

  • Mathematical models are vital for precise simulation of cellular processes, enhancing understanding of molecular mechanisms.
  • This review consolidates knowledge on cellular modeling to aid in the design and optimization of engineered organisms for biomanufacturing.
  • Addressing challenges like data scarcity and computational complexity is key for future advancements.