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

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
PublisherSpringer
Pages241-265
Number of pages25
Volume2229
ISBN (Electronic)978-1-0716-1032-9
ISBN (Print)978-1-0716-1031-2, 978-1-0716-1034-3
DOIs
Publication statusPublished - 7 Jan 2021

Publication series

NameMethods in Molecular Biology
PublisherHumana Press
Volume2229
ISSN (Print)1064-3745
ISSN (Electronic)1940-6029

Keywords

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

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