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

9 Citations (Scopus)

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.
Volume2016-August
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

Other

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

Fingerprint

Metabolism
Communication
Chemical reactions
Biotechnology
Chemical analysis
Escherichia coli
Telecommunication networks
Ion exchange
Bacteria
Communication systems
Internet
Engineers
Molecules
Synthetic Biology

Keywords

  • cell metabolism
  • flux balance analysis
  • information theory
  • Molecular communication
  • 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 (Vol. 2016-August). [7536835] Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/SPAWC.2016.7536835

Mutual information upper bound of molecular communication based on cell metabolism. / Pierobon, Massimiliano; Sakkaff, Zahmeeth; Catlett, Jennie L.; Buan, Nicole R.

SPAWC 2016 - 17th IEEE International Workshop on Signal Processing Advances in Wireless Communications. Vol. 2016-August Institute of Electrical and Electronics Engineers Inc., 2016. 7536835.

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

Pierobon, M, Sakkaff, Z, Catlett, JL & Buan, NR 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. vol. 2016-August, 7536835, Institute of Electrical and Electronics Engineers Inc., 17th IEEE International Workshop on Signal Processing Advances in Wireless Communications, SPAWC 2016, Edinburgh, United Kingdom, 7/3/16. https://doi.org/10.1109/SPAWC.2016.7536835
Pierobon M, Sakkaff Z, Catlett JL, Buan NR. 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. Vol. 2016-August. Institute of Electrical and Electronics Engineers Inc. 2016. 7536835 https://doi.org/10.1109/SPAWC.2016.7536835
Pierobon, Massimiliano ; Sakkaff, Zahmeeth ; Catlett, Jennie L. ; Buan, Nicole R. / Mutual information upper bound of molecular communication based on cell metabolism. SPAWC 2016 - 17th IEEE International Workshop on Signal Processing Advances in Wireless Communications. Vol. 2016-August Institute of Electrical and Electronics Engineers Inc., 2016.
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