Dario Pescini

Publication Activity (10 Years)

Years Active: 2005-2022
Publications (10 Years): 16

Top Topics

Sensitivity Analysis

Cellular Automata

Caenorhabditis Elegans

Top Venues

PLoS Comput. Biol.

Publications

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)
Marzia Di Filippo, Chiara Damiani, Dario Pescini
GPRuler: Metabolic gene-protein-reaction rules automatic reconstruction. PLoS Comput. Biol. 17 (11) (2021)
Marco S. Nobile, Vasco Coelho, Dario Pescini, Chiara Damiani
Accelerated global sensitivity analysis of genome-wide constraint-based metabolic models. BMC Bioinform. (2) (2021)
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)
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) (2020)
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)
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)
Chiara Damiani, Dario Pescini, Marco S. Nobile
Global Sensitivity Analysis of Constraint-Based Metabolic Models. CIBB (2018)
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)
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. (7) (2018)
Chiara Damiani, Marzia Di Filippo, Dario Pescini, Davide Maspero, Riccardo Colombo, Giancarlo Mauri
popFBA: tackling intratumour heterogeneity with Flux Balance Analysis. Bioinform. 33 (14) (2017)
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)
Marzia Di Filippo, Chiara Damiani, Riccardo Colombo, Dario Pescini, Giancarlo Mauri
Constraint-Based Modeling and Simulation of Cell Populations. WIVACE (2016)
Riccardo Colombo, Chiara Damiani, Giancarlo Mauri, Dario Pescini
Constraining Mechanism Based Simulations to Identify Ensembles of Parametrizations to Characterize Metabolic Features. CIBB (2016)
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 (2016)
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)
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) (2014)
Marco S. Nobile, Daniela Besozzi, Paolo Cazzaniga, Giancarlo Mauri, Dario Pescini
cupSODA: A CUDA-Powered Simulator of Mass-Action Kinetics. PaCT (2013)
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)
Daniela Besozzi, Giulio Caravagna, Paolo Cazzaniga, Marco S. Nobile, Dario Pescini, Alessandro Re
GPU-powered Simulation Methodologies for Biological Systems. WIVACE (2013)
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)
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 (2013)
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 (2012)
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)
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)
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) (2011)
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)
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)
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)
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)
Alberto Leporati, Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Claudio Ferretti
Computing with energy and chemical reactions. Nat. Comput. 9 (2) (2010)
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) (2009)
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)
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)
Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Giancarlo Mauri
A Multi-volume Approach to Stochastic Modeling with Membrane Systems. Algorithmic Bioprocesses (2009)
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)
Dario Pescini, Paolo Cazzaniga, Claudio Ferretti, Giancarlo Mauri
First Steps Towards a Wet Implementation for t-DPP. Workshop on Membrane Computing (2008)
Daniela Besozzi, Paolo Cazzaniga, Dario Pescini, Giancarlo Mauri
Modelling metapopulations with stochastic membrane systems. Biosyst. 91 (3) (2008)
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) (2007)
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)
Dario Pescini, Daniela Besozzi, Giancarlo Mauri, Claudio Zandron
Dynamical probabilistic P systems. Int. J. Found. Comput. Sci. 17 (1) (2006)
Paolo Cazzaniga, Dario Pescini, Daniela Besozzi, Giancarlo Mauri
Tau Leaping Stochastic Simulation Method in P Systems. Workshop on Membrane Computing (2006)
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)
Dario Pescini, Daniela Besozzi, Claudio Zandron, Giancarlo Mauri
Analysis and Simulation of Dynamics in Probabilistic P Systems. DNA (2005)
Dario Pescini, Daniela Besozzi, Giancarlo Mauri
Investigating Local Evolutions in Dynamical Probabilistic P Systems. SYNASC (2005)