SURF 2021: Modeling tools for design and analysis of synthetic biological circuits

SURF 2020 project description

Figure 1: Modeling and analysis tools in synthetic biology pipeline

• Mentor: Richard Murray
• Co-mentor: Ayush Pandey

Research directions for the SURF project include:

• Modeling of cell-free systems
• System identification by parts, global sensitivity analysis, model decomposition, reduced models
• Using extract and tx-tl data

We are interested in both theoretical and computational directions for this project.

References:

1. Tuza, Zoltan A., et al. "An in silico modeling toolbox for rapid prototyping of circuits in a biomolecular “breadboard” system." 52nd IEEE Conference on Decision and Control. IEEE, 2013. Link
2. Bioscrape
3. BioCRNpyler
4. Sub-SBML