Dynamical probabilistic P systems D Pescini, D Besozzi, G Mauri, C Zandron International Journal of Foundations of Computer Science 17 (01), 183-204, 2006 | 127 | 2006 |
A metabolic core model elucidates how enhanced utilization of glucose and glutamine, with enhanced glutamine-dependent lactate production, promotes cancer cell growth: The … C Damiani, R Colombo, D Gaglio, F Mastroianni, D Pescini, ... PLoS computational biology 13 (9), e1005758, 2017 | 81 | 2017 |
Integration of single-cell RNA-seq data into population models to characterize cancer metabolism C Damiani, D Maspero, M Di Filippo, R Colombo, D Pescini, A Graudenzi, ... PLoS computational biology 15 (2), e1006733, 2019 | 79 | 2019 |
Modelling metapopulations with stochastic membrane systems D Besozzi, P Cazzaniga, D Pescini, G Mauri Biosystems 91 (3), 499-514, 2008 | 74 | 2008 |
Heterodyne near-field scattering: A technique for complex fluids F Ferri, D Magatti, D Pescini, MAC Potenza, M Giglio Physical Review E—Statistical, Nonlinear, and Soft Matter Physics 70 (4 …, 2004 | 73 | 2004 |
A GPU-based multi-swarm PSO method for parameter estimation in stochastic biological systems exploiting discrete-time target series MS Nobile, D Besozzi, P Cazzaniga, G Mauri, D Pescini European Conference on Evolutionary Computation, Machine Learning and Data …, 2012 | 61 | 2012 |
Computational strategies for a system-level understanding of metabolism P Cazzaniga, C Damiani, D Besozzi, R Colombo, MS Nobile, D Gaglio, ... Metabolites 4 (4), 1034-1087, 2014 | 60 | 2014 |
Modeling and stochastic simulation of the Ras/cAMP/PKA pathway in the yeast Saccharomyces cerevisiae evidences a key regulatory function for intracellular guanine nucleotides pools P Cazzaniga, D Pescini, D Besozzi, G Mauri, S Colombo, E Martegani Journal of biotechnology 133 (3), 377-385, 2008 | 60 | 2008 |
Tau leaping stochastic simulation method in P systems P Cazzaniga, D Pescini, D Besozzi, G Mauri International Workshop on Membrane Computing, 298-313, 2006 | 55 | 2006 |
cuTauLeaping: A GPU-powered tau-leaping stochastic simulator for massive parallel analyses of biological systems MS Nobile, P Cazzaniga, D Besozzi, D Pescini, G Mauri PLoS One 9 (3), e91963, 2014 | 48 | 2014 |
A comparison of genetic algorithms and particle swarm optimization for parameter estimation in stochastic biochemical systems D Besozzi, P Cazzaniga, G Mauri, D Pescini, L Vanneschi Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics …, 2009 | 47 | 2009 |
The role of feedback control mechanisms on the establishment of oscillatory regimes in the Ras/cAMP/PKA pathway in S. cerevisiae D Besozzi, P Cazzaniga, D Pescini, G Mauri, S Colombo, E Martegani EURASIP Journal on Bioinformatics and Systems Biology 2012, 1-17, 2012 | 46 | 2012 |
Simulation of the Ras/cAMP/PKA pathway in budding yeast highlights the establishment of stable oscillatory states D Pescini, P Cazzaniga, D Besozzi, G Mauri, L Amigoni, S Colombo, ... Biotechnology advances 30 (1), 99-107, 2012 | 40 | 2012 |
Zooming-in on cancer metabolic rewiring with tissue specific constraint-based models M Di Filippo, R Colombo, C Damiani, D Pescini, D Gaglio, M Vanoni, ... Computational biology and chemistry 62, 60-69, 2016 | 39 | 2016 |
Towards probabilistic model checking on P systems using PRISM FJ Romero-Campero, M Gheorghe, L Bianco, D Pescini, ... Membrane Computing: 7th International Workshop, WMC 2006, Leiden, The …, 2006 | 34 | 2006 |
popFBA: tackling intratumour heterogeneity with Flux Balance Analysis C Damiani, M Di Filippo, D Pescini, D Maspero, R Colombo, G Mauri Bioinformatics 33 (14), i311-i318, 2017 | 31 | 2017 |
Analysis and simulation of dynamics in probabilistic P systems D Pescini, D Besozzi, C Zandron, G Mauri DNA Computing: 11th International Workshop on DNA Computing, DNA11, London …, 2006 | 27 | 2006 |
INTEGRATE: Model-based multi-omics data integration to characterize multi-level metabolic regulation M Di Filippo, D Pescini, BG Galuzzi, M Bonanomi, D Gaglio, E Mangano, ... PLoS computational biology 18 (2), e1009337, 2022 | 26 | 2022 |
Reverse engineering of kinetic reaction networks by means of cartesian genetic programming and particle swarm optimization MS Nobile, D Besozzi, P Cazzaniga, D Pescini, G Mauri 2013 IEEE Congress on Evolutionary Computation, 1594-1601, 2013 | 26 | 2013 |
Stochastic approaches in P systems for simulating biological systems P Cazzaniga, D Pescini, FJ Romero Campero, D Besozzi, G Mauri Proceedings of the Fourth Brainstorming Week on Membrane Computing, Vol. I …, 2006 | 24 | 2006 |