A Cyber-Physical Platform for Model Calibration

Lucia Bandiera, David Gomez-Cabeza, Eva Balsa-Canto, Filippo Menolascina

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract / Description of output

Synthetic biology has so far made limited use of mathematical models, mostly because their inference has been traditionally perceived as expensive and/or difficult. We have recently demonstrated how in silico simulations and in vitro/vivo experiments can be integrated to develop a cyber-physical platform that automates model calibration and leads to saving 60-80% of the effort. In this book chapter, we illustrate the protocol used to attain such results. By providing a comprehensive list of steps and pointing the reader to the code we use to operate our platform, we aim at providing synthetic biologists with an additional tool to accelerate the pace at which the field progresses toward applications.

Original languageEnglish
Title of host publicationSynthetic Gene Circuits
Subtitle of host publicationMethods and Protocols
EditorsFilippo Menolascina
Number of pages25
ISBN (Electronic)978-1-0716-1032-9
ISBN (Print)978-1-0716-1031-2, 978-1-0716-1034-3
Publication statusPublished - 7 Jan 2021

Publication series

NameMethods in Molecular Biology
PublisherHumana Press
ISSN (Print)1064-3745
ISSN (Electronic)1940-6029

Keywords / Materials (for Non-textual outputs)

  • Synthetic Biology
  • Mathematical modeling
  • System identification
  • Optimal experimental design
  • Microfluidics


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