Development of essential software and community resources for modeling in systems biology in Java™

01/09/2016 to 30/04/2020

Computational modeling is increasingly a crucial aspect of biomedical research, and SBML (the Systems Biology Markup Language) has become the de facto standard open format for exchanging models between software tools in computational systems biology. Software developers and researchers who write modeling software benefit from the availability of open-source SBML software resources that provide starting points for incorporating SBML support in their software. The goal of this project is to enhance numerous software and database resources that have proven to be essential for the SBML-using community, develop software to improve interoperability between SBML and other formats, and develop instructional materials for all facets of SBML, especially recently-developed SBML enhancements and their use in the context of different real-life modeling approaches. The focus of this project is mainly on the Java-based library JSBML and its applications to modeling hospital infections.