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Finite Element Modelling of a Cellular Electric Microenvironment
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Integrative modeling of the cell.

Xianni Zhong1,2, Jihui Zhao1, Liping Sun1

  • 1iHuman Institute, ShanghaiTech University, Shanghai 201210, China.

Acta Biochimica Et Biophysica Sinica
|August 26, 2022
PubMed
Summary

This review outlines a five-step workflow for whole-cell modeling, emphasizing an integrative approach to combine existing models for enhanced accuracy and completeness in cell biology research.

Keywords:
cell biologycompartment modelintegrative modelingwhole-cell modeling

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Area of Science:

  • Cell biology
  • Computational biology
  • Systems biology

Background:

  • Whole-cell models aim to represent cellular structure and function.
  • The complexity of cells necessitates integrative modeling approaches using diverse data.

Approach:

  • A five-step workflow for whole-cell modeling is presented: information gathering, modular representation, scoring function translation, model sampling, and validation.
  • The review proposes combining existing whole-cell models to improve accuracy, precision, and completeness.

Key Points:

  • Integrative modeling leverages experimental data, prior knowledge, and existing models.
  • Quantitative predictions from current whole-cell models are cataloged.
  • Challenges and future directions, including community-driven, spatiotemporal, multi-scale models, are discussed.

Conclusions:

  • An integrative, community-driven approach can advance the development of comprehensive whole-cell models.
  • Future whole-cell models should aim for spatiotemporal and multi-scale integration.