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Related Concept Videos

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Multicompartment Models: Overview

Multicompartment models are mathematical constructs that depict how drugs are distributed and eliminated within the body. They segment the body into several compartments, symbolizing various physiological or anatomical areas connected through drug transfer processes such as absorption, metabolism, distribution, and elimination.
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Multiscale Sampling of a Heterogeneous Water/Metal Catalyst Interface using Density Functional Theory and Force-Field Molecular Dynamics
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OpenCMISS: a multi-physics & multi-scale computational infrastructure for the VPH/Physiome project.

Chris Bradley1, Andy Bowery, Randall Britten

  • 1Auckland Bioengineering Institute (ABI), The University of Auckland, New Zealand. c.bradley@auckland.ac.nz

Progress in Biophysics and Molecular Biology
|July 19, 2011
PubMed
Summary
This summary is machine-generated.

The VPH/Physiome Project developed OpenCMISS, open-source software for computational modeling. It integrates subcellular, tissue, and organ-level processes using CellML and FieldML standards for complex physiological simulations.

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Area of Science:

  • Computational biology
  • Physiomics
  • Multiscale modeling

Background:

  • The VPH/Physiome Project aims to create integrated models of human physiology.
  • Existing software lacked the flexibility to link diverse biophysical processes across scales.
  • Development of CellML and FieldML standards provided a foundation for model encoding.

Purpose of the Study:

  • To introduce OpenCMISS, a new open-source computational modeling software.
  • To describe the design principles and architecture of OpenCMISS.
  • To demonstrate how OpenCMISS facilitates the integration of multiscale physiological models.

Main Methods:

  • Development of the OpenCMISS software over six years.
  • Implementation of a distributed memory architecture for scalability.
  • Design of interfaces for linking different physical equation sets and spatial fields.
  • Embodiment of CellML and FieldML concepts within OpenCMISS data structures.

Main Results:

  • OpenCMISS replaces previous CMISS code, supporting organ system Physiome projects.
  • The software integrates subcellular, tissue, and organ-level biophysical processes.
  • Demonstrated coupling of mechanics, fluid dynamics, and electrical propagation in cardiac modeling.
  • Flexible infrastructure for combining models developed within the VPH/Physiome community.

Conclusions:

  • OpenCMISS provides a flexible and robust infrastructure for multiscale physiological modeling.
  • The software enables the integration of diverse biophysical processes using established standards.
  • Facilitates collaborative model development and complex simulations within the VPH/Physiome community.