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ORCIDDario Pescini
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2020 – today
- 2022
[j19]Marzia Di Filippo
, Dario Pescini, Bruno Giovanni Galuzzi, Marcella Bonanomi, Daniela Gaglio, Eleonora Mangano, Clarissa Consolandi, Lilia Alberghina, Marco Vanoni, Chiara Damiani:
INTEGRATE: Model-based multi-omics data integration to characterize multi-level metabolic regulation. PLoS Comput. Biol. 18(2) (2022)- 2021
- [j18]Marco S. Nobile, Vasco Coelho, Dario Pescini, Chiara Damiani:
Accelerated global sensitivity analysis of genome-wide constraint-based metabolic models. BMC Bioinform. 22-S(2): 78 (2021) - [j17]Giulia Agostinetto, Anna Sandionigi, Antonia Bruno, Dario Pescini, Maurizio Casiraghi:
Extending Association Rule Mining to Microbiome Pattern Analysis: Tools and Guidelines to Support Real Applications. Frontiers Bioinform. 1 (2021) - [j16]Marzia Di Filippo, Chiara Damiani, Dario Pescini:
GPRuler: Metabolic gene-protein-reaction rules automatic reconstruction. PLoS Comput. Biol. 17(11) (2021) - 2020
- [j15]Davide Maspero, Chiara Damiani, Marco Antoniotti, Alex Graudenzi, Marzia Di Filippo, Marco Vanoni, Giulio Caravagna, Riccardo Colombo, Daniele Ramazzotti, Dario Pescini:
The Influence of Nutrients Diffusion on a Metabolism-driven Model of a Multi-cellular System. Fundam. Informaticae 171(1-4): 279-295 (2020)
2010 – 2019
- 2019
- [j14]Chiara Damiani, Davide Maspero, Marzia Di Filippo, Riccardo Colombo, Dario Pescini, Alex Graudenzi, Hans V. Westerhoff, Lilia Alberghina, Marco Vanoni, Giancarlo Mauri:
Integration of single-cell RNA-seq data into population models to characterize cancer metabolism. PLoS Comput. Biol. 15(2) (2019) - [c26]Davide Maspero, Marzia Di Filippo, Fabrizio Angaroni, Dario Pescini, Giancarlo Mauri, Marco Vanoni, Alex Graudenzi, Chiara Damiani:
Integration of Single-Cell RNA-Sequencing Data into Flux Balance Cellular Automata. CIBB 2019: 207-215 - 2018
- [j13]Riccardo Colombo, Chiara Damiani, David R. Gilbert, Monika Heiner, Giancarlo Mauri, Dario Pescini:
Emerging ensembles of kinetic parameters to characterize observed metabolic phenotypes. BMC Bioinform. 19-S(7): 45-59 (2018) - [c25]Chiara Damiani, Dario Pescini, Marco S. Nobile:
Global Sensitivity Analysis of Constraint-Based Metabolic Models. CIBB 2018: 179-186 - [c24]Davide Maspero, Alex Graudenzi, Satwinder Singh, Dario Pescini, Giancarlo Mauri, Marco Antoniotti, Chiara Damiani:
Synchronization Effects in a Metabolism-Driven Model of Multi-cellular System. WIVACE 2018: 115-126 - 2017
- [j12]Chiara Damiani, Marzia Di Filippo, Dario Pescini, Davide Maspero, Riccardo Colombo, Giancarlo Mauri:
popFBA: tackling intratumour heterogeneity with Flux Balance Analysis. Bioinform. 33(14): i311-i318 (2017) - [j11]Chiara Damiani, Riccardo Colombo, Daniela Gaglio, Fabrizia Mastroianni, Dario Pescini, Hans V. Westerhoff, Giancarlo Mauri, Marco Vanoni, Lilia Alberghina:
A metabolic core model elucidates how enhanced utilization of glucose and glutamine, with enhanced glutamine-dependent lactate production, promotes cancer cell growth: The WarburQ effect. PLoS Comput. Biol. 13(9) (2017) - 2016
- [j10]Marzia Di Filippo, Riccardo Colombo, Chiara Damiani, Dario Pescini, Daniela Gaglio, Marco Vanoni, Lilia Alberghina, Giancarlo Mauri:
Zooming-in on cancer metabolic rewiring with tissue specific constraint-based models. Comput. Biol. Chem. 62: 60-69 (2016) - [c23]Riccardo Colombo, Chiara Damiani, Giancarlo Mauri, Dario Pescini:
Constraining Mechanism Based Simulations to Identify Ensembles of Parametrizations to Characterize Metabolic Features. CIBB 2016: 107-117 - [c22]Marzia Di Filippo, Chiara Damiani, Riccardo Colombo, Dario Pescini, Giancarlo Mauri:
Constraint-Based Modeling and Simulation of Cell Populations. WIVACE 2016: 126-137 - [c21]Chiara Damiani, Riccardo Colombo, Marzia Di Filippo, Dario Pescini, Giancarlo Mauri:
Linking Alterations in Metabolic Fluxes with Shifts in Metabolite Levels by Means of Kinetic Modeling. WIVACE 2016: 138-148 - 2014
- [j9]Chiara Damiani, Dario Pescini, Riccardo Colombo, Sara Molinari, Lilia Alberghina, Marco Vanoni, Giancarlo Mauri:
An ensemble evolutionary constraint-based approach to understand the emergence of metabolic phenotypes. Nat. Comput. 13(3): 321-331 (2014) - 2013
- [j8]Flavio Amara, Riccardo Colombo, Paolo Cazzaniga, Dario Pescini, Attila Csikász-Nagy, Marco Falconi, Daniela Besozzi, Paolo Plevani:
In vivo and in silico analysis of PCNA ubiquitylation in the activation of the Post Replication Repair pathway in S. cerevisiae. BMC Syst. Biol. 7: 24 (2013) - [c20]Marco S. Nobile, Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Giancarlo Mauri:
Reverse engineering of kinetic reaction networks by means of Cartesian Genetic Programming and Particle Swarm Optimization. IEEE Congress on Evolutionary Computation 2013: 1594-1601 - [c19]Marco S. Nobile, Daniela Besozzi, Paolo Cazzaniga, Giancarlo Mauri, Dario Pescini:
cupSODA: A CUDA-Powered Simulator of Mass-Action Kinetics. PaCT 2013: 344-357 - [c18]Daniela Besozzi, Giulio Caravagna, Paolo Cazzaniga, Marco S. Nobile, Dario Pescini, Alessandro Re:
GPU-powered Simulation Methodologies for Biological Systems. WIVACE 2013: 87-91 - [c17]Chiara Damiani, Riccardo Colombo, Sara Molinari, Dario Pescini, Daniela Gaglio, Marco Vanoni, Lilia Alberghina, Giancarlo Mauri:
An ensemble approach to the study of the emergence of metabolic and proliferative disorders via Flux Balance Analysis. WIVACE 2013: 92-97 - 2012
- [j7]Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Giancarlo Mauri, Sonia Colombo, Enzo Martegani:
The role of feedback control mechanisms on the establishment of oscillatory regimes in the Ras/cAMP/PKA pathway in S. cerevisiae. EURASIP J. Bioinform. Syst. Biol. 2012: 10 (2012) - [c16]Marco S. Nobile, Daniela Besozzi, Paolo Cazzaniga, Giancarlo Mauri, Dario Pescini:
A GPU-Based Multi-swarm PSO Method for Parameter Estimation in Stochastic Biological Systems Exploiting Discrete-Time Target Series. EvoBIO 2012: 74-85 - [c15]Marco S. Nobile, Daniela Besozzi, Paolo Cazzaniga, Giancarlo Mauri, Dario Pescini:
Estimating reaction constants in stochastic biological systems with a multi-swarm PSO running on GPUs. GECCO (Companion) 2012: 1421-1422 - 2011
- [j6]Daniela Besozzi, Paolo Cazzaniga, Stefania Cocolo, Giancarlo Mauri, Dario Pescini:
Modeling Diffusion in a Signal Transduction Pathway: the Use of Virtual Volumes in P Systems. Int. J. Found. Comput. Sci. 22(1): 89-96 (2011) - [c14]Ivan Merelli, Dario Pescini, Ettore Mosca, Paolo Cazzaniga, Carlo Maj, Giancarlo Mauri, Luciano Milanesi:
Grid Computing for Sensitivity Analysis of Stochastic Biological Models. PaCT 2011: 62-73 - 2010
- [j5]Alberto Leporati, Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Claudio Ferretti:
Computing with energy and chemical reactions. Nat. Comput. 9(2): 493-512 (2010) - [c13]Daniela Besozzi, Paolo Cazzaniga, Giancarlo Mauri, Dario Pescini:
BioSimWare: A Software for the Modeling, Simulation and Analysis of Biological Systems. Int. Conf. on Membrane Computing 2010: 119-143 - [c12]Ettore Mosca, Paolo Cazzaniga, Dario Pescini, Giancarlo Mauri, Luciano Milanesi:
Modelling Spatial Heterogeneity and Macromolecular Crowding with Membrane Systems. Int. Conf. on Membrane Computing 2010: 285-304 - [c11]Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Giancarlo Mauri:
An Analysis on the Influence of Network Topologies on Local and Global Dynamics of Metapopulation Systems. AMCA-POP 2010: 1-17
2000 – 2009
- 2009
- [j4]Daniela Besozzi, Nadia Busi, Paolo Cazzaniga, Claudio Ferretti, Alberto Leporati, Giancarlo Mauri, Dario Pescini, Claudio Zandron:
(Tissue) P systems with cell polarity. Math. Struct. Comput. Sci. 19(6): 1141-1160 (2009) - [c10]Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Giancarlo Mauri:
A Multi-volume Approach to Stochastic Modeling with Membrane Systems. Algorithmic Bioprocesses 2009: 519-542 - [c9]Daniela Besozzi, Paolo Cazzaniga, Giancarlo Mauri, Dario Pescini, Leonardo Vanneschi:
A Comparison of Genetic Algorithms and Particle Swarm Optimization for Parameter Estimation in Stochastic Biochemical Systems. EvoBIO 2009: 116-127 - [c8]Paolo Cazzaniga, Giancarlo Mauri, Luciano Milanesi, Ettore Mosca, Dario Pescini:
A Novel Variant of P Systems for the Modelling and Simulation of Biochemical Systems. Workshop on Membrane Computing 2009: 210-226 - [c7]Daniela Besozzi, Paolo Cazzaniga, Matteo Dugo, Dario Pescini, Giancarlo Mauri:
A study on the combined interplay between stochastic fluctuations and the number of flagella in bacterial chemotaxis. COMPMOD 2009: 47-62 - 2008
- [j3]Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Giancarlo Mauri:
Modelling metapopulations with stochastic membrane systems. Biosyst. 91(3): 499-514 (2008) - [c6]Dario Pescini, Paolo Cazzaniga, Claudio Ferretti, Giancarlo Mauri:
First Steps Towards a Wet Implementation for t-DPP. Workshop on Membrane Computing 2008: 355-373 - 2007
- [j2]Michael Muskulus, Daniela Besozzi, Robert Brijder, Paolo Cazzaniga, Sanne Houweling, Dario Pescini, Grzegorz Rozenberg:
Cycles and communicating classes in membrane systems and molecular dynamics. Theor. Comput. Sci. 372(2-3): 242-266 (2007) - 2006
- [j1]Dario Pescini, Daniela Besozzi, Giancarlo Mauri, Claudio Zandron:
Dynamical probabilistic P systems. Int. J. Found. Comput. Sci. 17(1): 183-204 (2006) - [c5]Luca Bianco, Dario Pescini, Peter A. Siepmann, Natalio Krasnogor, Francisco José Romero-Campero, Marian Gheorghe:
Towards a P Systems Pseudomonas Quorum Sensing Model. Workshop on Membrane Computing 2006: 197-214 - [c4]Paolo Cazzaniga, Dario Pescini, Daniela Besozzi, Giancarlo Mauri:
Tau Leaping Stochastic Simulation Method in P Systems. Workshop on Membrane Computing 2006: 298-313 - [c3]Francisco José Romero-Campero, Marian Gheorghe, Luca Bianco, Dario Pescini, Mario J. Pérez-Jiménez, Rodica Ceterchi:
Towards Probabilistic Model Checking on P Systems Using PRISM. Workshop on Membrane Computing 2006: 477-495 - 2005
- [c2]Dario Pescini, Daniela Besozzi, Claudio Zandron, Giancarlo Mauri:
Analysis and Simulation of Dynamics in Probabilistic P Systems. DNA 2005: 236-247 - [c1]Dario Pescini, Daniela Besozzi, Giancarlo Mauri:
Investigating Local Evolutions in Dynamical Probabilistic P Systems. SYNASC 2005: 440-447
Coauthor Index
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