Modeling and Analyzing the Flow of Molecular Machines in Gene Expression

Yoram Zarai, Michael Margaliot, Tamir Tuller*

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review

6 Scopus citations


Gene expression is a fundamental cellular process by which proteins are synthesized based on the information encoded in the genetic material. During this process, macromolecules such as ribosomes or RNA polymerases scan the genetic material in a sequential manner. We review several deterministic, continuous-time models for the flow of such macromolecules. These models are both easy to simulate and amenable to rigorous mathematical analysis. We demonstrate how these models can be used to predict the expression levels of genes and to study important biological phenomena such as competition for finite resources, sensitivity of gene expression to various biophysical factors, and optimization of the protein production rate.

Original languageEnglish
Title of host publicationRNA Technologies
PublisherSpringer Science and Business Media Deutschland GmbH
Number of pages26
StatePublished - 2018

Publication series

NameRNA Technologies
ISSN (Print)2197-9731
ISSN (Electronic)2197-9758


  • Biotechnology
  • Entrainment
  • Gene expression
  • Ribosome flow model
  • Stability
  • Synthetic biology


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