CytoCopasi - Integrating Chemical Systems Biology into Cytoscape

[Hikmet Emre Kaya]

Hello Everyone,

The Scientific Computing Research Unit (SCRU) at the University of Cape Town is pleased to announce the recent Bioinformatics publication of the manuscript "CytoCopasi: a chemical systems biology target and drug discovery visual data analytics platform"

The Cytoscape app CytoCopasi incorporates the simulation and analysis tools of COmplex PAthway SImulator (COPASI) into Cytoscape to utilize the platform's visualization tools and database access. This helps streamline comparative chemical systems biology calculations (i.e., when one wants to directly visualize the downstream effects of perturbations or drug action in large reaction networks).

We believe that bringing chemical systems biology functionality into Cytoscape will pave the way for multilayered approaches in target discovery and drug development.

The manuscript is available in open-access mode: Link

Link to the .JAR file, manual, and supplementary data can be found on the SCRU- GitHub page

We hope that the Cytoscape community finds the work insightful. Questions and comments are highly appreciated.

Kind regards,

Hikmet Emre Kaya