Simone Pernice

35 papers A 1B 1C 3Journal 13Unranked 17

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	Machine Learning for analysis of Multiple Sclerosis cross-tissue bulk and single-cell transcriptomics data. CoRR Francesco Massafra, Samuele Punzo, Silvia Giulia Galfrè, Alessandro Maglione, Simone Pernice, Stefano Forti, Simona Rolla, Marco Beccuti, Marinella Clerico, Corrado Priami, Alina Sîrbu
2025	—	`conf`	A Simulation-Based Framework to Reduce I/O Contention in HPC. IPDPS (Workshops) Simone Pernice, Ahmad Tarraf, Jean-Baptiste Besnard, Barbara Cantalupo, Alberto Cascajo, David E. Singh, Felix Wolf, Jesús Carretero, Sameer Shende, Marco Aldinucci
2025	—	`conf`	Epidemic Modelling Frameworks for Studying Infectious Disease Dynamics. ICHI Daniele Baccega, Marco Beccuti, Simone Pernice, Irene Terrone
2025	C	`conf`	Exploiting GPU computing for effective Agent-Based simulation: initial experiments. PDP Marzio Pennisi, Giuliana Franceschinis, Daniele Baccega, Simone Pernice, Irene Terrone
2025	J	`jnl`	Forge4Flame: An intuitive dashboard for designing GPU agent-based models to simulate infectious disease spread. Simul. Model. Pract. Theory Daniele Baccega, Irene Terrone, Peter Heywood, Robert Chisholm, Paul Richmond, Sandro Gepiro Contaldo, Lorenzo Bosio, Simone Pernice, Marco Beccuti
2025	J	`jnl`	UnifiedGreatMod: a new holistic modelling paradigm for studying biological systems on a complete and harmonious scale. Bioinform. Riccardo Aucello, Simone Pernice, Dora Tortarolo, Raffaele A. Calogero, Celia Herrera-Rincon, Giulia Ronchi, Stefano Geuna, Francesca Cordero, Pietro Lió, Marco Beccuti
2024	J	`jnl`	CREDO: a friendly Customizable, REproducible, DOcker file generator for bioinformatics applications. BMC Bioinform. Simone Alessandri, Maria L. Ratto, Sergio Rabellino, Gabriele Piacenti, Sandro Gepiro Contaldo, Simone Pernice, Marco Beccuti, Raffaele A. Calogero, Luca Alessandrì
2024	J	`jnl`	From Compositional Petri Net Modeling to Macro and Micro Simulation by Means of Stochastic Simulation and Agent-Based Models. ACM Trans. Model. Perform. Evaluation Comput. Syst. Elvio Gilberto Amparore, Marco Beccuti, Paolo Castagno, Simone Pernice, Giuliana Franceschinis, Marzio Pennisi
2024	—	`conf`	Functional Data Analysis and Clustering of Haematological Parameters in SARS-CoV-2 Patients. CIBB Daniela Volpatto, Marco Frattarola, Simone Pernice, Francesca Cordero, Marco Beccuti, Giulio Mengozzi, Stefano De Angelis, Roberta Sirovich
2024	—	`conf`	PHeP: TrustAlert Open-Source Platform for Enhancing Predictive Healthcare with Deep Learning. CIBB Sandro Gepiro Contaldo, Emanuele Pietropaolo, Lorenzo Bosio, Simone Pernice, Irene Terrone, Daniele Baccega, Yuting Wang, Rahul Kumar Sahoo, Giuseppe Rizzo, Alessia Visconti, Paola Berchialla, Marco Beccuti
2023	J	`jnl`	A new computational workflow to guide personalized drug therapy. J. Biomed. Informatics Simone Pernice, Alessandro Maglione, Dora Tortarolo, Roberta Sirovich, Marinella Clerico, Simona Rolla, Marco Beccuti, Francesca Cordero
2023	—	`conf`	Artificial intelligence methods for biomedical imaging and omics data. Ital-IA Carlo Alberto Barbano, Marco Beccuti, Francesca Cordero, Desislav Nikolaev Ivanov, Nicola Licheri, Simone Pernice, Alberto Presta, Riccardo Renzulli, Marco Grangetto
2023	J	`jnl`	CONNECTOR, fitting and clustering of longitudinal data to reveal a new risk stratification system. Bioinform. Simone Pernice, Roberta Sirovich, Elena Grassi, Marco Viviani, Martina Ferri, Francesco Sassi, Luca Alessandrì, Dora Tortarolo, Raffaele A. Calogero, Livio Trusolino, Andrea Bertotti, Marco Beccuti, Martina Olivero, Francesca Cordero
2023	—	`conf`	Extension of the GreatMod Modeling Framework to Simulate Non-Markovian Processes with General-Distributed Events. CIBB Irene Terrone, Daniela Volpatto, Simone Pernice, Elvio G. Amparore, Roberta Sirovich, Francesca Cordero, Marco Beccuti
2023	—	`conf`	Living Along COVID-19: Assessing Contention Policies Through Agent-Based Models. CIBB Daniele Baccega, Simone Pernice, Paolo Castagno, Matteo Sereno, Marco Beccuti
2023	A	`conf`	MODIMO: Workshop on Multi-Omics Data Integration for Modelling Biological Systems. CIKM Simone Avesani, Vincenzo Bonnici, Simone Pernice, Marco Beccuti, Rosalba Giugno
2023	—	`conf`	OmniReprodubileCellAnalysis: a comprehensive toolbox for the analysis of cellular biology data. BIBM Dora Tortarolo, Simone Pernice, Fabiana Clapero, Donatella Valdembri, Guido Serini, Federica Riccardo, Lidia Tarone, Chiara Enrico Bena, Carla Bosia, Sandro Gepiro Contaldo, Marco Beccuti, Marzio Pennisi, Francesca Cordero
2023	—	`conf`	Stochastic Modeling and Dosage Optimization of a Cancer Vaccine Exploiting the EpiMod Framework. CIBB Marco Beccuti, Giuliana Franceschinis, Marzio Pennisi, Simone Pernice, Irene Terrone
2023	—	`conf`	Synergy Between Mechanistic Modelling and Ensemble Feature Selection Approaches to Explore Multiscale Biological Heterogeneity. CIBB Riccardo Aucello, Nicola Licheri, Elena Rosso, Giulio Ferrero, Sandro Gepiro Contaldo, Simone Pernice, Pietro Lió, Francesca Cordero, Marco Beccuti
2022	J	`jnl`	An Agent-Based Model to Support Infection Control Strategies at School. J. Artif. Soc. Soc. Simul. Daniele Baccega, Simone Pernice, Pietro Terna, Paolo Castagno, Giovenale Moirano, Lorenzo Richiardi, Matteo Sereno, Sergio Rabellino, Milena Maria Maule, Marco Beccuti
2021	—	`conf`	A Petri Net Formalism to Study Systems at Different Scales Exploiting Agent-Based and Stochastic Simulations. EPEW Marco Beccuti, Paolo Castagno, Giuliana Franceschinis, Marzio Pennisi, Simone Pernice
2021	—	`conf`	Multiformalism modeling and simulation of immune system mechanisms. BIBM Elvio Gilberto Amparore, Marco Beccuti, Paolo Castagno, Giuliana Franceschinis, Marzio Pennisi, Simone Pernice
2020	J	`jnl`	A computational framework for modeling and studying pertussis epidemiology and vaccination. BMC Bioinform. Paolo Castagno, Simone Pernice, Gianni Ghetti, Massimiliano Povero, Lorenzo Pradelli, Daniela Paolotti, Gianfranco Balbo, Matteo Sereno, Marco Beccuti
2020	J	`jnl`	Computational modeling of the immune response in multiple sclerosis using epimod framework. BMC Bioinform. Simone Pernice, Laura Follia, Alessandro Maglione, Marzio Pennisi, Francesco Pappalardo, Francesco Novelli, Marinella Clerico, Marco Beccuti, Francesca Cordero, Simona Rolla
2020	J	`jnl`	Integrating Petri Nets and Flux Balance Methods in Computational Biology Models: a Methodological and Computational Practice. Fundam. Informaticae Simone Pernice, Laura Follia, Gianfranco Balbo, Luciano Milanesi, Giulia Sartini, Niccoló Totis, Pietro Lió, Ivan Merelli, Francesca Cordero, Marco Beccuti
2020	J	`jnl`	Multiple Sclerosis disease: a computational approach for investigating its drug interactions. CoRR Simone Pernice, Marco Beccuti, Greta Romano, Marzio Pennisi, Alessandro Maglione, Santina Cutrupi, Francesco Pappalardo, Lorenzo Capra, Giuliana Franceschinis, Massimiliano De Pierro, Gianfranco Balbo, Francesca Cordero, Raffaele A. Calogero
2019	B	`conf`	A Tool for the Automatic Derivation of Symbolic ODE from Symmetric Net Models. MASCOTS Marco Beccuti, Lorenzo Capra, Massimiliano De Pierro, Giuliana Franceschinis, Laura Follia, Simone Pernice
2019	J	`jnl`	A computational approach based on the colored Petri net formalism for studying multiple sclerosis. BMC Bioinform. Simone Pernice, Marzio Pennisi, Greta Romano, Alessandro Maglione, Santina Cutrupi, Francesco Pappalardo, Gianfranco Balbo, Marco Beccuti, Francesca Cordero, Raffaele A. Calogero
2019	—	`conf`	Exploiting Stochastic Petri Net formalism to capture the Relapsing Remitting Multiple Sclerosis variability under Daclizumab administration. BIBM Simone Pernice, Greta Romano, Giulia Russo, Marco Beccuti, Marzio Pennisi, Francesco Pappalardo
2019	C	`conf`	MethylFASTQ: A Tool Simulating Bisulfite Sequencing Data. PDP Giulia Beatrice Piaggeschi, Nicola Licheri, Greta Romano, Simone Pernice, Laura Follia, Giulio Ferrero
2019	—	`conf`	Multiple Sclerosis Disease: A Computational Approach for Investigating Its Drug Interactions. CIBB Simone Pernice, Marco Beccuti, Greta Romano, Marzio Pennisi, Alessandro Maglione, Santina Cutrupi, Francesco Pappalardo, Lorenzo Capra, Giuliana Franceschinis, Massimiliano De Pierro, Gianfranco Balbo, Francesca Cordero, Raffaele A. Calogero
2018	—	`conf`	Deriving Symbolic Ordinary Differential Equations from Stochastic Symmetric Nets Without Unfolding. EPEW Marco Beccuti, Lorenzo Capra, Massimiliano De Pierro, Giuliana Franceschinis, Simone Pernice
2018	—	`conf`	Estimating Daclizumab effects in Multiple Sclerosis using Stochastic Symmetric Nets. BIBM Simone Pernice, Marco Beccuti, Pietro Do', Marzio Pennisi, Francesco Pappalardo
2018	—	`conf`	GPU Accelerated Analysis of Treg-Teff Cross Regulation in Relapsing-Remitting Multiple Sclerosis. Euro-Par Workshops Marco Beccuti, Paolo Cazzaniga, Marzio Pennisi, Daniela Besozzi, Marco S. Nobile, Simone Pernice, Giulia Russo, Andrea Tangherloni, Francesco Pappalardo
2018	C	`conf`	ParallNormal: An Efficient Variant Calling Pipeline for Unmatched Sequencing Data. PDP Laura Follia, Fabio Tordini, Simone Pernice, Greta Romano, Giulia Beatrice Piaggeschi, Giulio Ferrero