Information content analysis reveals desirable aspects of in vivo experiments of a synthetic circuit

D. Gomez Cabeza, L. Bandiera, E. Balsa-Canto, F. Menolascina

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Synthetic biology is predicated upon the paradigm of rationally engineering biological systems to enrich them with new functions. Departing from the path outlined by other engineering disciplines, synthetic biology has made limited use of mathematical models so far. Indeed, their laborious inference leverages on noisy data that often provide partial insights into the system behaviour. If the quality of data generated via a perturbation is a road-block to inference, how should we analyse the informativeness of a stimulus? Which are the factors that contribute to it? Here we combine ideas from System Identification and Bayesian inference to quantify the information content of in vivo experiments for the calibration of a deterministic model of the genetic toggle switch. Beyond establishing a link between Bayes-and Fisher Information-based inference approaches, we find a ∼ 40% gain can be ascribed to the dynamical properties of the perturbation scheme. Our results hint at the importance of including Bayesian experimental design in the characterisation of synthetic circuits.

Original languageEnglish
Title of host publication2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2019
EditorsGiacomo Baruzzo, Sebastian Daberdaku, Barbara Di Camillo, Simone Furini, Emanuele Domenico Giordano, Giuseppe Nicosia
PublisherInstitute of Electrical and Electronics Engineers Inc.
ISBN (Electronic)9781728114620
DOIs
Publication statusPublished - 8 Aug 2019
Event16th IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2019 - Certosa di Pontignano, Siena, Italy
Duration: 9 Jul 201911 Jul 2019

Publication series

Name2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2019

Conference

Conference16th IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2019
Country/TerritoryItaly
CityCertosa di Pontignano, Siena
Period9/07/1911/07/19

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