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Professor Natalio Krasnogor
Professor Miguel Camara
Dr. Stephan Heeb
Interdisciplinary Computing and Complex Systems research group (ICO2S)
Computer Science Home
Jonathan Blakes
Room B82
School of Computer Science
University of Nottingham
Jubilee Campus
Wollaton Road
Nottingham NG8 1BB
UK

T:+44(0) 11584 68403
jvbATcs.nott.ac.uk

Jonathan Blakes PhD

Post-doctoral Research Associate in Computational Synthetic Systems Biology


Interdisciplinary Computing and Complex Systems (ICO2S) research group


Publications

Journal Papers

  1. Blakes J, Twycross J, Romero-Campero FJ and Krasnogor N. "The Infobiotics Workbench: an integrated in silico modelling platform for Systems and Synthetic Biology" Bioinformatics 2011 [DOI (open access),documentation]

Conference Papers

  1. Romero-Campero FJ, Twycross J, Cao H, Blakes J, Krasnogor N. "A Multiscale Modelling Framework Based On P Systems" Workshop on Membrane Computing 2008 (WMC9) Edinburgh, UK, July 28-31, Revised Selected and Invited Papers in Lecture Notes in Computer Science 5391: 63-77. [pdf]

  2. Smaldon J, Blakes J, Lancet D, Krasnogor N. "A Multi-scaled Approach to Artificial Life Simulation With P Systems and Dissipative Particle Dynamics" Proceedings of the Genetic and Evolutionary Computation Conference (GECCO 2008 Atlanta, USA), 249-256, ACM Publisher, 2008. [pdf,bibtex]

Extended Abstracts

  1. Blakes J, Krasnogor N, Romero-Campero FJ, Twycross J. "An Executable Biology Methodology for Systems and Synthetic Biology" Proceedings of the ECCB Satellite Meeting on Probabilistic Modelling in Computational Biology, Cagliari, Sardinia, September 2008. [pdf]

Posters

  1. Blakes J, Romero-Campero FJ, Twycross J, Cao H, Krasnogor N. "An Integrated Development Environment for Synthetic Biology Models" presented at European Conference on Synthetic Biology (ECSB) II: Design, Programming and Optimisation of Biological Systems (ESF-UB Conference in Biomedicine), Sant Feliu de Guixols, Spain, 29 March - 03 April 2009. [pptx,pdf]

  2. Romero-Campero FJ, Blakes J, Camara M, Krasnogor N. "A systems analysis of the AHL Quorum Sensing system in Pseudomonas aeruginosa" presented at Systems Biology (ESF-UB Conference in Biomedicine), Sant Feliu de Guixols, Spain, 12-17 April 2008. [ppt]

  3. Romero-Campero FJ, Blakes J, Cao H, Camara M, Krasnogor N. "A modular and stochastic approach to the study of gene circuits using P systems" presented at Genomes to Systems Manchester, UK March 17-19 2008. [pdf]

  4. Romero-Campero FJ, Blakes J, Camara M, Willams P, Perez-Jimenez MJ, Krasnogor N. "Formal informatics and machine learning for more principled systems and synthetic biology" presented at European Conference on Synthetic Biology (ESF-UB Conference in Biomedicine), Sant Feliu de Guixols, Spain, 24-29 November 2007. [pdf]


Photos

The Infobiotics team dining out during the Genomes to Systems conference in Manchester (clockwise from left: Hongqing Cao, James Smaldon, Jonathan Blakes, Jamie Twycross, Fran Romero-Campero).