Publications

  • Perrin, D. (2006). Agent-Based Modelling of Viral Infection. ERCIM News, 64:50-51.
  • Perrin, D., Ruskin, H. J., Burns, J. and Crane, M. (2006). An agent-based approach to immune modelling. Lecture Notes in Computer Science, 3980:612-621.
  • Perrin, D., Ruskin, H. J., and Crane, M. (2006). An agent-based approach to immune modelling: Priming individual response. Selected proceedings of Third International Conference on Modeling and Simulation (ICMS06), pp. 81-86.
  • Perrin, D., Ruskin, H. J., and Crane, M. (2006). HIV Modelling - A Parallel Implementation of a Lymph Network. Selected proceedings of The Third International Conference on Cluster and Grid Computing Systems (CGCS 2006), pp. 84-89.
  • Perrin, D., Ruskin, H. J., Crane, M., and Walshe, R. (2008). Epigenetic modelling. ERCIM News, 72:46.
  • Perrin, D., and Burns, J. (2008). Large-scale immune models and visualization. ERCIM News, 74:33-34.
  • Kerr, G., Perrin, D., Ruskin H. J., and Crane, M. (2008). Empirical vs. Distribution Based Weighting for Gene Expression Graphs. (currently under review)
  • Perrin, D., Ruskin, H. J., and Crane, M. (2008). In silico Biology: making the most of parallel computing. (currently under review)

Conferences and presentations

  • Perrin, D., and Ruskin, H. J. (2006). Agent-Based Modelling of Viral Infection: An Introduction (poster). BioNet 2006 conference, Tallaght, Ireland.
  • Perrin, D., Ruskin, H. J., Burns, J., and Crane, M. (2006). An agent-based approach to immune modelling. 2006 International Conference on Computational Science and its Applications (ICCSA 2006), Glasgow, UK.
  • Perrin, D., Ruskin, H. J., and Crane, M. (2006). HIV Modelling – Parallel Implementation Strategies. Third International Conference on Cluster and Grid Computing Systems (CGCS06), Venice, Italy.
  • Perrin, D., Ruskin, H. J., and Crane, M. (2006). An agent-based approach to immune modelling, Priming individual response. Third International Conference on Modeling and Simulation (ICMS06), Cairo, Egypt.
  • Perrin, D., Duhamel, C., Ruskin, H. J., and Crane, M. (2007). Microarray biclustering: mathematical model and metaheuristic alternatives. International Conference on Computational Methods (ICCM2007), Hiroshima, Japan.
  • Perrin, D. (2007). Biocomputation Research: a two-way street between Biology and Computer Science. Invited talk at the Research Institute for Microbial Diseases, Osaka University, Japan.
  • Perrin, D., Ruskin, H. J., and Crane, M. (2007). The case for epigenetic modelling (poster). IARC meeting on cancer and epigenetics, International Agency for Research on Cancer, Lyon, France.
  • Burns, J., Perrin, D., and Ruskin, H. J. (2008). Network stability and susceptibility in computational epigenetics (poster). Second annual Symposium on Biological Complexity: Genes, Circuits and Behavior, Salk Institute for Biological Studies, La Jolla, California, USA.
  • Perrin, D., Ruskin, H. J. and Crane, M. (2008). Towards epigenetic modelling: an initial map. IET BioSysBio 2008, Synthetic Biology, Systems Biology and Bioinformatics, London, UK.
  • Perrin, D., and Ruskin, H. J. (2008). The case for epigenetic modelling (poster). XX International Congress of Genetics, Berlin, Germany.
  • Porwal, J., Ruskin, H. J., Perrin, D., and Roche, D. (2008). Microscopic model of epigenetic mechanisms (poster). XX International Congress of Genetics, Berlin, Germany.
  • Perrin, D., Ruskin, H. J., and Crane, M. (2008). Inclusion of localised patterns in a large-scale agent-based model of the immune response to HIV infection (poster). Sixteenth Annual International Conference Intelligent Systems for Molecular Biology (ISMB2008), Toronto, Canada.