Selected Publications

(for the complete list see my Google Scholar page, my DBLP page and my ResearchGate profile)

  1. L. Rundo, A. Tangherloni, M.S. Nobile, C. Militello, D. Besozzi, G. Mauri, P. Cazzaniga. MedGA: A novel evolutionary method for image enhancement in medical imaging systems. Expert Systems with Applications, 2019
  2. M.S. Nobile, P. Cazzaniga, D. Besozzi, R. Colombo, G. Mauri, G. Pasi. Fuzzy Self-Tuning PSO: A settings-free algorithm for global optimization. Swarm and Evolutionary Computation, 2018
  3. L.A. Harris, M.S. Nobile, J.C. Pino, A.L.R. Lubbock, D. Besozzi, G. Mauri, P. Cazzaniga, C.F. Lopez. GPU-powered model analysis with PySB/cupSODA. Bioinformatics, 2017
  4. M.S. Nobile, P. Cazzaniga, A. Tangherloni, D. Besozzi. Graphics Processing Units in Bioinformatics, Computational Biology and Systems Biology. Briefings in Bioinformatics, 2016
  5. A. Tangherloni, M.S. Nobile, P. Cazzaniga, D. Besozzi, G. Mauri. Gillespie’s Stochastic Simulation Algorithm on MIC coprocessors. Journal of Supercomputing, 2016
  6. P. Cazzaniga, C. Damiani, D. Besozzi, R. Colombo, M.S. Nobile, et al.. Computational Strategies for a System-Level Understanding of Metabolism. Metabolites, 2014.
  7. M.S. Nobile, P. Cazzaniga, D. Besozzi, D. Pescini, G. Mauri. cuTauLeaping: A GPU-Powered Tau-Leaping Stochastic Simulator for Massive Parallel Analyses of Biological Systems. PLoS ONE, 2014
  8. F. Amara, R. Colombo, P. Cazzaniga, D. Pescini, A. Csikász-Nagy, M. Muzi Falconi, D. Besozzi, P. Plevani. In vivo and in silico analysis of PCNA ubiquitylation in the activation of the Post Replication Repair pathway in S. cerevisiae. BMC Systems Biology, 2013
  9. M.S. Nobile, D. Besozzi, P. Cazzaniga, D. Pescini, G. Mauri. Reverse engineering of kinetic reaction networks by means of Cartesian Genetic Programming and Particle Swarm Optimization. IEEE Congress on Evolutionary Computation (CEC 2013). 2013
  10. D. Besozzi, P. Cazzaniga, D. Pescini, G. Mauri, S. Colombo, E. Martegani. The role of feedback control mechanisms on the establishment of oscillatory regimes in the Ras/cAMP/PKA pathway in S. cerevisiae. EURASIP Journal on Bioinformatics and Systems Biology, 2012
  11. D. Pescini, P. Cazzaniga, D. Besozzi, G. Mauri, S. Colombo, E. Martegani. Simulation of the Ras/cAMP/PKA pathway in budding yeast highlights the establishment of stable oscillatory states. Biotechnology Advances, 2012
  12. M. Muskulus, D. Besozzi, R. Brijder, P. Cazzaniga, S. Houweling, D. Pescini, G. Rozenberg. Cycles and communicating classes in membrane systems and molecular dynamics. Theoretical Computer Science, 2007