Sanassy, Daven, Fellermann, Harold, Krasnogor, Natalio, Konur, Savas, Mierla, Laurentiu M., Gheorghe, Marian, Ladroue, Christophe and Kalvala, Sara (2014) Modelling and stochastic simulation of synthetic biological Boolean gates. In: 2014 IEEE International Conference on High Performance Computing and Communications, 2014 IEEE 6th Intl Symp on Cyberspace Safety and Security, 2014 IEEE 11th Intl Conf on Embedded Software and Syst (HPCC,CSS,ICESS), Paris, 20-22 Aug 2014. Published in: High Performance Computing and Communications, 2014 IEEE 6th Intl Symp on Cyberspace Safety and Security, 2014 IEEE 11th Intl Conf on Embedded Software and Syst (HPCC,CSS,ICESS) pp. 404-408. ISBN 9781479961221. doi:10.1109/HPCC.2014.68

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Abstract

Synthetic Biology aspires to design, compose and engineer biological systems that implement specified behaviour. When designing such systems, hypothesis testing via computational modelling and simulation is vital in order to reduce the need of costly wet lab experiments. As a case study, we discuss the use of computational modelling and stochastic simulation for engineered genetic circuits that implement Boolean AND and OR gates that have been reported in the literature. We present performance analysis results for nine different state-of-the-art stochastic simulation algorithms and analyse the dynamic behaviour of the proposed gates. Stochastic simulations verify the desired functioning of the proposed gate designs.

Item Type:	Conference Item (Paper)
Subjects:	Q Science > QA Mathematics > QA76 Electronic computers. Computer science. Computer software Q Science > QH Natural history > QH301 Biology
Divisions:	Faculty of Science, Engineering and Medicine > Science > Computer Science
Library of Congress Subject Headings (LCSH):	Synthetic biology, Bioengineering, Computer simulation, Stochastic processes
Journal or Publication Title:	High Performance Computing and Communications, 2014 IEEE 6th Intl Symp on Cyberspace Safety and Security, 2014 IEEE 11th Intl Conf on Embedded Software and Syst (HPCC,CSS,ICESS)
Publisher:	IEEE
ISBN:	9781479961221
Book Title:	2014 IEEE Intl Conf on High Performance Computing and Communications, 2014 IEEE 6th Intl Symp on Cyberspace Safety and Security, 2014 IEEE 11th Intl Conf on Embedded Software and Syst (HPCC,CSS,ICESS)
Official Date:	August 2014
Dates:	Date Event August 2014 Published
Page Range:	pp. 404-408
DOI:	10.1109/HPCC.2014.68
Status:	Peer Reviewed
Publication Status:	Published
Access rights to Published version:	Restricted or Subscription Access
Date of first compliant deposit:	27 October 2016
Date of first compliant Open Access:	27 October 2016
Funder:	Engineering and Physical Sciences Research Council (EPSRC)
Grant number:	EP/I031642/1, EP/J004111/1, EP/L001489/1
Embodied As:	1
Conference Paper Type:	Paper
Title of Event:	2014 IEEE International Conference on High Performance Computing and Communications, 2014 IEEE 6th Intl Symp on Cyberspace Safety and Security, 2014 IEEE 11th Intl Conf on Embedded Software and Syst (HPCC,CSS,ICESS)
Type of Event:	Conference
Location of Event:	Paris
Date(s) of Event:	20-22 Aug 2014
Related URLs:	Publisher

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