Computationally Guided Design of Robust Gene Circuits

Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1244)

Abstract

The inability to rationally design and construct circuits that robustly enable complex behaviors is perhaps the most fundamental challenge in synthetic biology. While systems modeling can aid this process and help reduce the space of design strategies, the unavailability and dynamic variability of kinetic parameters limits the utility of such models. Here, we present a general approach that employs an exhaustive enumeration of network architectures to suggest topologies that robustly enable a desired behavior.

Key words

Synthetic circuit design Systems modeling Network topology Topology search 

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Copyright information

© Springer Science+Business Media New York 2015

Authors and Affiliations

  1. 1.Genomics and Computational Biology Graduate Group, Perelman School of MedicineUniversity of PennsylvaniaPhiladelphiaUSA
  2. 2.Applied Mathematics and Modeling, Informatics ITMerck Research LabsWest PointUSA
  3. 3.Department of Biomedical Engineering, College of Science and EngineeringUniversity of MinnesotaMinneapolisUSA

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