A systems-theoretic model of a biological circuit for molecular communication in nanonetworks

Nano Communication Networks

Volumn 5, Issue 1-2, 2014, Pages 25-34

  Pierobon, Massimiliano ^a  

^a UNIVERSITY OF NEBRASKA LINCOLN   (United States)

Author keywords

Biological circuit; Biological nanomachine; Diffusion equation; Molecular communication; Nanonetworks; Synthetic biology

Indexed keywords

CELLS; COMMUNICATION; CYTOLOGY; DESIGN; MOLECULES; NANOTECHNOLOGY;

DIFFUSION EQUATIONS; MOLECULAR COMMUNICATION; NANO-NETWORKS; NANOMACHINES; SYNTHETIC BIOLOGY;

COOPERATIVE COMMUNICATION;

EID: 84902360776     PISSN: 18787789     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.nancom.2014.04.002     Document Type: Article

References (23)

1. Akyildiz I.F., Fekri F., Sivakumar R., Forest C.R., Hammer B.K. Monaco: fundamentals of molecular nano-communication networks. IEEE Wirel. Commun. Mag. 2012, 19(5):12-18.
2. Akyildiz I.F., Jornet J.M., Pierobon M. Nanonetworks: a new frontier in communications. Commun. ACM 2011, 54(11):84-89.
3. Alon U. An Introduction to Systems Biology-Design Principles of Biological Circuits 2006, Chapman & Hall/CRC.
4. Andrews S.S., Dinh T., Arkin A.P. Stochastic Models of Biological Processes, Vol. 9 2009, Springer, NY. R. Meyers (Ed.).
5. Baker D., Church G., Collins J., Endy D., Jacobson J., Keasling J., Modrich P., Smolke C., Weiss R. Engineering life: building a fab for biology. Sci. Am. 2006, 294(6):44-51.
6. Bustamante C., Chelma Y., Forde N., Izhaky D. Mechanical processes in biochemistry. Annu. Rev. Biochem. 2004, 73:705-748.
7. Canton B., Labno A., Endy D. Refinement and standardization of synthetic biological parts and devices. Nature Biotechnol. 2008, 26(7):787-793.
8. Cox C.D., McCollum J.M., Austin D.W., Allen M.S., Dar R.D., Simpson M.L. Frequency domain analysis of noise in simple gene circuits. Chaos 2006, 16(2):026102.
9. Cussler E.L. Diffusion. Mass Transfer in Fluid Systems 1997, Cambridge University Press. second ed.
10. Davies B. Integral Transforms and their Applications 2002, Springer, New York.
11. Donahue B.S., Abercrombie R.F. Free diffusion coefficient of ionic calcium in cytoplasm. Cell Calcium 1987, 8(6):437-448.
12. Freitas R.A. Nanomedicine, Volume I: Basic Capabilities 1999, Landes Bioscience, Georgetown, TX.
13. Fuqua W.C., Winans S.C., Greenberg E.P. Quorum sensing in bacteria: the luxr-luxi family of cell density-responsive transcriptional regulators. J. Bacteriol. 1994, 176(2):269-275.
14. Garcia-Ojalvo J., Elowitz M.B., Strogatz S.H. Modeling a synthetic multicellular clock: repressilators coupled by quorum sensing. Proc. Natl. Acad. Sci. USA 2004, 101(30):10955-10960.
15. Goryachev A.B., Toh D.J., Lee T. Systems analysis of a quorum sensing network: design constraints imposed by the functional requirements, network topology and kinetic constants. Biosystems 2006, 83(2-3):178-187.
16. Ladbury J.E., Arold S.T. Noise in cellular signaling pathways: causes and effects. Trends Biochem. Sci. 2012, 37(5):173-178.
17. Mandelis A. Diffusion-Wave Fields: Mathematical Methods and Green Functions 2001, Springer-Verlag.
18. Mukherji S., van Oudenaarden A. Synthetic biology: understanding biological design from synthetic circuits. Nature Rev. Genet. 2009, 10:859-871.
19. Myers C.J. Engineering Genetic Circuits. Mathematical and Computational Biology Series 2009, Chapman & Hall/CRC.
20. Philibert J. One and a half century of diffusion: Fick, Einstein, before and beyond. Diffus. Fundam. 2006, 4:6.1-6.19.
21. Salis H., Tamsir A., Voigt C. Engineering bacterial signals and sensors. Contrib. Microbiol. 2009, 16:194-225.
22. Simpson M.L., Cox C.D., Allen M.S., McCollum J.M., Dar R.D., Karig D.K., Cooke J.F. Noise in biological circuits. Wiley Interdiscip. Rev. Nanomed. Nanobiotechnol. 2009, 1(2):214-225.
23. Yonzon C.R., Stuart D.A., Zhang X., McFarland A.D., Haynes C.L., Duyne R.P.V. Towards advanced chemical and biological nanosensors-an overview. Talanta 2005, 67(3):438-448.