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B de Bono1, S Safaei1, P Grenon2

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This study applies bond graph modeling to ApiNATOMY, enhancing the representation of biophysical processes within biological compartments. This approach integrates multiscale physiology and compartmental topology for clearer visualization and analysis.

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anatomybond graphsmodellingphysiology

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Area of Science:

  • Computational Biology
  • Physiology Modeling
  • Systems Biology

Background:

  • Representing complex physiological processes across multiple scales remains a challenge.
  • Integrating diverse biophysical processes within biological structures requires robust modeling frameworks.

Purpose of the Study:

  • To introduce and demonstrate the application of bond graph formalism within the ApiNATOMY framework.
  • To model acid-base physiology scenarios, linking distinct process modalities.
  • To provide a semantically and mathematically explicit basis for multiscale physiology representation.

Main Methods:

  • Utilizing the bond graph formalism to explicitly represent biophysical processes.
  • Embedding bond graphs onto ApiNATOMY compartments.
  • Focusing on modeling scenarios from acid-base physiology.

Main Results:

  • Demonstrated successful application of bond graphs for representing inter- and intra-compartmental biophysical processes.
  • Linked distinct process modalities using bond graphs within an ApiNATOMY circuit.
  • Established a coherent basis for representing multiscale physiology and compartmental topology.

Conclusions:

  • Bond graph formalism integrated with ApiNATOMY offers a powerful approach for modeling multiscale physiological systems.
  • This method enhances the semantic and mathematical explicitness of physiological process representation.
  • The approach facilitates coherent integration and visualization of complex biological systems.