SUMMARY.md

Table of Contents

• Open Systems Pharmacology Suite Manual & Copyright
• How to Contribute

Mechanistic Modeling of Pharmacokinetics and Dynamics

• Modeling Concepts

  • PBPK Modeling - Systems Biology

  • PK and PD Modeling

  • Principles of PBPK Modeling

  • Expression Data for PBPK Modeling

  • Modeling of Proteins

  • PD and Reaction Network Modeling

Open Systems Pharmacology Suite

• Modules, Philosophy, and Building Blocks
• Getting Started

Working with PK-Sim

• PK-Sim Documentation

  • Quick Guide‌

  • Options

  • Projects

  • Creating Individuals

  • Creating Populations

  • Expression Data

  • Compounds: Definition and Work Flows

  • Compounds: Defining Inhibition/Induction Processes

  • Administration Protocols

  • Events

  • Formulations

  • Simulations

  • Importing and Exporting Project Data and Models

  • Conversion of Projects from Previous Version

  • Command Line Interface - CLI

Working with MoBi

• MoBi‌ Documentation

  • First Steps

  • The Building Block Concept

  • Model Building and Model Components

  • Setting up a Simulation

  • Simulation Results

  • Diagrams Overview

  • Tools

  • Reuse of Project Information from Previous Versions

Shared Tools and Example Workflows

*   [Features of Tables](part-5/features-of-tables.md)

*   [Chart Component](part-5/chart-component.md)

*   [Comparison of Building Blocks](part-5/comparison-building-blocks.md)

*   [Parameter Identification](part-5/parameter-identification.md)

*   [Sensitivity Analysis](part-5/sensitivity-analysis.md)

*   [Import and Edit of Observed Data](part-5/import-edit-observed-data.md)

*   [Default, Display and Base Units](part-5/default-display-base-units.md)

*   [Reporting](part-5/reporting.md)

*   [Working Journal](part-5/working-journal.md)

*   [History Manager and History Reporting‌](part-5/history-manager-history-reporting‌.md)

*   [Setting up a Reaction Network‌](part-5/setting-up-reaction-network‌.md)

*   [Setting up a Drug-Drug Interaction in PK-Sim‌](part-5/setting-drug-drug-interaction-pk-sim‌.md)

Working with Matlab and R‌

*   [Matlab - Introduction](part-6/matlab-introduction.md)

*   [R - Introduction](part-6/r-introduction.md)

Appendix

*   [Appendix](appendix.md)

References

*   [References](references.md)