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interactive apps to facilitate building, simulating, and analyzing dynamic systems

simbiology provides a set of integrated apps that are designed to facilitate building, simulating, and analyzing models of dynamic systems such as quantitative systems pharmacology (qsp), pharmacokinetic/pharmacodynamic (pk/pd) and systems biology models.

the simbiology model builder app lets you build dynamic models interactively using various modeling elements. for instance, you can model a variety of biological systems such as signaling pathways, metabolic networks, pbpk, qsp, and pk/pd models. it also lets you model biological variability and different dosing regimens to investigate various experimental conditions and dosing strategies.
the simbiology model analyzer app lets you perform analyses on models of dynamic systems. you can simulate the dynamic behavior of a model using various solvers and estimate model parameters. to investigate system dynamics and guide experimentation, you can perform sensitivity analysis and parameter sweeps.

apps

	build qsp, pk/pd, and mechanistic systems biology models interactively
simbiology model analyzer	analyze qsp, pk/pd, and mechanistic systems biology models

functions

	open simbiology model builder
	get simbiology diagram block properties
	set simbiology diagram block properties
	get simbiology diagram line properties
	set simbiology diagram line properties
	split simbiology species block in diagram
	combine copies of simbiology species block in diagram

topics

build models

create model of receptor-ligand kinetics
create and simulate a simple receptor-ligand kinetics model using simbiology apps.
incorporate sglt2 inhibition into physiologically based glucose-insulin model using simbiology model builder
update a glucose-insulin model to integrate sodium-glucose co-transporter 2 (sglt2) receptor inhibition by a hypothetical compound.
copy and paste simbiology blocks while building models in the diagram.
the simbiology^® libraries are collections of built-in components that you can use to build and analyze models.
the simbiology model builder app uses contextual icons to provide more information about model components in the browser tables and blocks in the diagram tab.
you can undo and redo actions related to model building and configuring block properties.
the simbiology model builder app provides keyboard shortcuts for various modeling actions.
generate reports containing model information.
view and run generated matlab code for model building actions in the model builder app.
import and export variant and dosing information saved in an excel file to the model builder app.

analyze models and data

calculate nca parameters and fit model to pk/pd data using simbiology model analyzer
calibrate model parameters by performing noncompartmental analysis and fitting to experimental pkpd data using nonlinear regression.
perform local sensitivity analysis to find important parameters for tumor growth.
perform gsa analyses, such as sobol indices, elementary effects, and multiparametric gsa, to find important model parameters in a target-mediated drug disposition model.
explore biological variability with virtual patients using simbiology model analyzer
generate sample values for model parameters to represent virtual patients, simulate to explore tumor growth variability, and investigate the effects of dosing regimens on tumor size.
explore multiple dosing amounts that meet efficacy and toxicity thresholds.
perform group simulation using the group-specific doses and variants from a data set.
generate reports containing analysis results from programs.
view and run generated program code at the command line.
visualize experimental data and simulation statistics using percentile plot.
the simbiology model analyzer app provides keyboard shortcuts for various analysis actions.