Mutual information upper bound of molecular communication based on cell metabolism

Massimiliano Pierobon, Zahmeeth Sakkaff, Jennie L. Catlett, Nicole R. Buan

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

10 Scopus citations

Abstract

Synthetic biology is providing novel tools to engineer cells and access the basis of their molecular information processing, including their communication channels based on chemical reactions and molecule exchange. Molecular communication is a discipline in communication engineering that studies these types of communications and ways to exploit them for novel purposes, such as the development of ubiquitous and heterogeneous communication networks to interconnect biological cells with nano and biotechnology-enabled devices, i.e., the Internet of Bio-Nano Things. One major problem in synthetic biology stands in the development of reliable techniques to control the engineered cells from the external environment. In this paper, molecular communication concepts are applied to study the potential of cell metabolism, and its regulation, to serve this purpose. In particular, a communication system abstraction is introduced to obtain a binary encoder model of the mechanisms underlying the regulation of the chemical reactions activity within the cell metabolism in function of the chemical composition of the external environment. Stemming from this model, an upper bound to the information theoretic mutual information is obtained through the use of a well-known and computationally efficient metabolic simulation technique. This upper bound stands as a theoretical limit of the ability of a particular cell to internally represent the information contained in the chemical composition of the external environment. Numerical results related to the metabolism of the E. coli bacterium are presented to evaluate the proposed approach.

Original languageEnglish (US)
Title of host publicationSPAWC 2016 - 17th IEEE International Workshop on Signal Processing Advances in Wireless Communications
PublisherInstitute of Electrical and Electronics Engineers Inc.
ISBN (Electronic)9781509017492
DOIs
StatePublished - Aug 9 2016
Event17th IEEE International Workshop on Signal Processing Advances in Wireless Communications, SPAWC 2016 - Edinburgh, United Kingdom
Duration: Jul 3 2016Jul 6 2016

Publication series

NameIEEE Workshop on Signal Processing Advances in Wireless Communications, SPAWC
Volume2016-August

Other

Other17th IEEE International Workshop on Signal Processing Advances in Wireless Communications, SPAWC 2016
CountryUnited Kingdom
CityEdinburgh
Period7/3/167/6/16

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Keywords

  • Molecular communication
  • cell metabolism
  • flux balance analysis
  • information theory
  • regulation of gene expression

ASJC Scopus subject areas

  • Electrical and Electronic Engineering
  • Computer Science Applications
  • Information Systems

Cite this

Pierobon, M., Sakkaff, Z., Catlett, J. L., & Buan, N. R. (2016). Mutual information upper bound of molecular communication based on cell metabolism. In SPAWC 2016 - 17th IEEE International Workshop on Signal Processing Advances in Wireless Communications [7536835] (IEEE Workshop on Signal Processing Advances in Wireless Communications, SPAWC; Vol. 2016-August). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/SPAWC.2016.7536835