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).