A Practical Step-by-Step Guide for Quantifying Retroactivity in Gene Networks

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

One of the fundamental properties of engineered large-scale complex systems is modularity. In synthetic biology, genetic parts exhibit context-dependent behavior. Here, we describe and quantify a major source of such behavior: retroactivity. In particular, we provide a step-by-step guide for characterizing retroactivity to restore the modular description of genetic modules. Additionally, we also discuss how retroactivity can be leveraged to quantify and maximize robustness to perturbations due to interconnection of genetic modules.

Original languageEnglish (US)
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages293-311
Number of pages19
DOIs
StatePublished - 2021

Publication series

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

Keywords

  • Context-dependence
  • Gene transcription networks
  • Loading
  • Model order reduction
  • Modularity
  • Retroactivity
  • Synthetic biology

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

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