SimBiology0 pages

SimBiology
Model, simulate, and analyze biological systems
SimBiology® provides a graphical environment and programmatic tools to model, simulate, and analyze dynamic
systems, focusing on pharmacokinetic/pharmacodynamic (PK/PD) and systems biology applications. It provides a
block diagram editor for building models, or you can create models programmatically using the MATLAB®
language. SimBiology includes a library of common PK models, which you can customize and integrate with
mechanistic systems biology models.
A variety of model exploration techniques let you identify optimal dosing schedules and putative drug targets in
cellular pathways. SimBiology uses ordinary differential equations (ODEs) and stochastic solvers to simulate the
time course profile of drug exposure, drug efficacy, and enzyme and metabolite levels. You can investigate system
dynamics and guide experimentation using parameter sweeps and sensitivity analysis. You can also use single
subject or population data to estimate model parameters.
Key Features
▪ Graphical editor for PK/PD and systems biology modeling
▪ Ordinary differential equations (ODEs) and stochastic solvers
▪ Library of pharmacokinetic models
▪ Parameter estimation techniques for single subject and population data, including nonlinear mixed-effects
models
▪ Sensitivity analysis and parameter sweeps to investigate how parameters affect system dynamics
▪ Diagnostic plots for individual and population fits
▪ Methods for creating dosing schedules

Building a Model in SimBiology 12:56
Build and simulate a model using the SimBiology desktop.

Modeling
SimBiology lets you represent a model of a biological or a pharmacological mechanism just as you would draw it
on a piece of paper. Using a reaction network modeling approach, SimBiology lets you model drug
pharmacokinetics and pharmacodynamics (PK/PD), biological systems, and chemical reaction kinetics.
SimBiology automatically constructs the ODEs based on the model structure and the math underlying individual
interactions, providing an alternative to an ODE-based representation of the model.
You can create models using a block diagram editor or programmatically. You can also import models from a
built-in library of PK models or a Systems Biology Markup Language (SBML) file.

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