Lecture: Reproducible Research & SBML

This lecture focuses on reproducible research in computational modeling, introducing SBML as a standard for model exchange, exploring tools for simulation, and emphasizing FAIR principles and open science practices to support transparency and collaboration.

Learning Objectives

The main learning objectives are

• 🎯 Understand the role of reproducibility in computational modeling.
• 🎯 Introduce the Systems Biology Markup Language (SBML) as a standard for model representation and exchange.
• 🎯 Gain familiarity with tools for creating,and simulating SBML models (e.g., sbmlutils, cy3sbml).
• 🎯 Discuss FAIR principles (Findable, Accessible, Interoperable, Reusable) and their application to model data and metadata.
• 🎯 Highlight the importance of open science practices for transparent and collaborative research.

Lecture

Download: L09_Koenig_MB19_SBML.pdf