Computer Models & Software Tools

Dr. Ranjan Dash and the team at the Computational Systems Biology Laboratory work with collaborators to develop computer models and software tools to aid in the understanding and integration of complex biological data from the molecular, cellular, tissue, and whole-organ levels.  Learn more about  some of CSBL's recent computer models and software tools below.  


Recent Models & Tools



Developed by Dr. Ranjan Dash and the CSBL, the BioModME is a standalone R/Shiny-based web application package that provides investigators with an intuitive, comprehensive graphical user interface to build, solve, visualize, and analyze computational models for complex biological systems.

Learn more about BioModME


Computational Models of Substrate-Dependent Mitochondrial Respiration and Bioenergetics in the Heart and Kidney Cortex and Outer Medulla

More information coming soon!


Simulating the Evolution of Signaling Signatures during CART-Cell -- Tumor Cell Interactions

More information coming soon!


Physiologically-Based Pharmacokinetic Modeling of Blood Clearance of Liver Fluorescent Markers for the Assessment of the Degree of Hepatic Ischemia-Reperfusion Injury

More information coming soon!


Computational Modeling of Protracted HCMV Replication Using Genome Substrates and Protein Temporal Files

Published by PNAS in Aug 2022, this work was done in collaboration with Dr. Scott Terhune, Professor of Microbiology and Immunology at the Medical College of Wisconsin.  

View the Publication | Access the Codes