Marzio Pennisi

85 papers C 3Journal 35Unranked 46

Year	Rank	Type	Title / Venue / Authors
2026	—	`conf`	Decoupling Complexity from Population Size: A Macro-Agent Architecture for Scalable Stochastic Simulations. ICPE Companion Marzio Pennisi, Giuliana Franceschinis
2025	J	`jnl`	AutoML-Med: A Framework for Automated Machine Learning in Medical Tabular Data. CoRR Riccardo Francia, Maurizio Leone, Giorgio Leonardi, Stefania Montani, Marzio Pennisi, Manuel Striani, Sandra D'Alfonso
2025	—	`conf`	Automl-Med: A Tool for Optimizing Pipeline Generation in Medical Ml. BIBM Riccardo Francia, Giorgio Leonardi, Stefania Montani, Marzio Pennisi, Manuel Striani, Maurizio Leone, Sandra D'Alfonso
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	—	`conf`	Risk Assessment Models in Hydroelectric Plants. EPEW Davide Cerotti, Lavinia Egidi, Daniele Codetta Raiteri, Marzio Pennisi, Giuliana Franceschinis, Andrea Bobbio, Luigi Portinale, Marco Cappicciola, Edoardo Martino L'Aurora, Noemi Silicato
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
2023	—	`conf`	Exploiting Structural Dependency Relations for Efficient Agent Based Model Simulation. EPEW Marzio Pennisi, Elvio G. Amparore, Giuliana Franceschinis
2023	J	`jnl`	Exploring the State of Machine Learning and Deep Learning in Medicine: A Survey of the Italian Research Community. Inf. Alessio Bottrighi, Marzio Pennisi
2023	—	`conf`	Modeling and Simulation of anakinra effects on severe COVID19 Patients. BIBM William Cavallaro, Marzio Pennisi, Evdoxia Kyriazopoulou, Giulia Russo, Maria Cristina Jori, Evangelos J. Giamarellos-Bourboulis, Francesco Pappalardo
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
2022	J	`jnl`	A machine learning approach for predicting high risk hospitalized patients with COVID-19 SARS-Cov-2. BMC Medical Informatics Decis. Mak. Alessio Bottrighi, Marzio Pennisi, Annalisa Roveta, Costanza Massarino, Antonella Cassinari, Marta Betti, Tatiana Bolgeo, Marinella Bertolotti, Emanuele Rava, Antonio Maconi
2022	—	`conf`	UISS-GPU: Accelerated In-Silico Tuberculosis Vaccine Trials Using FLAME GPU. BIBM Paul Richmond, Matthew Leach, Peter Heywood, Francesco Pappalardo, Giulia Russo, Marzio Pennisi
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`	A Preliminary Analysis of Hospitalized Covid-19 Patients in Alessandria Area: a machine learning approach. COINS Marta Betti, Marinella Bertolotti, Tatiana Bolgeo, Alessio Bottrighi, Antonella Cassinari, Antonio Maconi, Costanza Massarino, Marzio Pennisi, Emanuele Rava, Annalisa Roveta
2021	J	`jnl`	Model verification tools: a computational framework for verification assessment of mechanistic agent-based models. BMC Bioinform. Giulia Russo, Giuseppe Alessandro Parasiliti Palumbo, Marzio Pennisi, Francesco Pappalardo
2021	—	`conf`	Multi-scale Agent-based Models in Immunology. A Short Review. CIKM Workshops Marzio Pennisi
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`	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`	Credibility of In Silico Trial Technologies - A Theoretical Framing. IEEE J. Biomed. Health Informatics Marco Viceconti, Miguel A. Juárez, Cristina Curreli, Marzio Pennisi, Giulia Russo, Francesco Pappalardo
2020	—	`conf`	Evaluation of the predictive capability of PETAL tool: a retrospective study on potential tyrosine kinases drug resistance targets. BIBM Giuseppe Sgroi, Marzio Pennisi, Giulia Russo, Francesco Pappalardo, Giuseppe Alessandro Parasiliti Palumbo
2020	J	`jnl`	Generation of digital patients for the simulation of tuberculosis with UISS-TB. BMC Bioinform. Miguel A. Juárez, Marzio Pennisi, Giulia Russo, Dimitrios Kiagias, Cristina Curreli, Marco Viceconti, Francesco Pappalardo
2020	J	`jnl`	In Silico Trial to test COVID-19 candidate vaccines: a case study with UISS platform. CoRR Giulia Russo, Marzio Pennisi, Marco Viceconti, Francesco Pappalardo
2020	J	`jnl`	In silico trial to test COVID-19 candidate vaccines: a case study with UISS platform. BMC Bioinform. Giulia Russo, Marzio Pennisi, Epifanio Fichera, Santo Motta, Giuseppina Raciti, Marco Viceconti, Francesco Pappalardo
2020	J	`jnl`	Moving forward through the in silico modeling of tuberculosis: a further step with UISS-TB. BMC Bioinform. Giulia Russo, Giuseppe Sgroi, Giuseppe Alessandro Parasiliti Palumbo, Marzio Pennisi, Miguel A. Juárez, Pere-Joan Cardona, Santo Motta, Kenneth B. Walker, Epifanio Fichera, Marco Viceconti, Francesco Pappalardo
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
2020	—	`conf`	Verify: a toolbox for deterministic verification of computational models. BIBM Giuseppe Alessandro Parasiliti Palumbo, Giulia Russo, Giuseppe Sgroi, Marco Viceconti, Marzio Pennisi, Cristina Curreli, Francesco Pappalardo
2019	C	`conf`	A MapReduce Based Tool for the Analysis and Discovery of Novel Therapeutic Targets. PDP Giuseppe Parasiliti, Marzio Pennisi, Pietro Biondi, Giuseppe Sgroi, Giulia Russo, Christian Napoli, Francesco Pappalardo
2019	—	`conf`	A MapReduce tool for in-depth analysis of KEGG pathways: identification and visualization of therapeutic target candidates. BIBM Giuseppe Alessandro Parasiliti Palumbo, Pietro Biondi, Giuseppe Sgroi, Marzio Pennisi, Giulia Russo, Francesco Pappalardo
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	—	`ch.`	Computational Immunogenetics. Encyclopedia of Bioinformatics and Computational Biology (2) Marta Gomez-Perosanz, Giulia Russo, Jose Luis Sanchez-Trincado Lopez, Marzio Pennisi, Pedro A. Reche, Adrian J. Shepherd, Francesco Pappalardo
2019	J	`jnl`	Computational modeling reveals MAP3K8 as mediator of resistance to vemurafenib in thyroid cancer stem cells. Bioinform. Fiorenza Gianì, Giulia Russo, Marzio Pennisi, Laura Sciacca, Francesco Frasca, Francesco Pappalardo
2019	J	`jnl`	EpiMethEx: a tool for large-scale integrated analysis in methylation hotspots linked to genetic regulation. BMC Bioinform. Saverio Candido, Giuseppe Alessandro Parasiliti Palumbo, Marzio Pennisi, Giulia Russo, Giuseppe Sgroi, Valentina Di Salvatore, Massimo Libra, Francesco Pappalardo
2019	—	`conf`	Evaluation of the efficacy of RUTI and ID93/GLA-SE vaccines in tuberculosis treatment: in silico trial through UISS-TB simulator. BIBM Giulia Russo, Francesco Pappalardo, Miguel A. Juárez, Marzio Pennisi, Pere-Joan Cardona, Rhea Coler, Epifanio Fichera, Marco Viceconti
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	—	`conf`	Gene expression and pathway bioinformatics analysis detect a potential predictive value of MAP3K8 in thyroid cancer progression. BIBM Valentina Di Salvatore, Fiorenza Gianì, Giulia Russo, Marzio Pennisi, Pasqualino Malandrino, Francesco Frasca, Francesco Pappalardo
2019	J	`jnl`	Gene expression and pathway bioinformatics analysis detect a potential predictive value of MAP3K8 in thyroid cancer progression. CoRR Valentina Di Salvatore, Fiorenza Gianì, Giulia Russo, Marzio Pennisi, Pasqualino Malandrino, Francesco Frasca, Francesco Pappalardo
2019	—	`conf`	Generation of digital patients for the simulation of tuberculosis with UISS-TB. BIBM Marzio Pennisi, Miguel A. Juárez, Giulia Russo, Marco Viceconti, Francesco Pappalardo
2019	J	`jnl`	Generation of digital patients for the simulation of tuberculosis with UISS-TB. CoRR Marzio Pennisi, Miguel A. Juárez, Giulia Russo, Marco Viceconti, Francesco Pappalardo
2019	—	`conf`	In Silico Evaluation of Daclizumab and Vitamin D Effects in Multiple Sclerosis Using Agent Based Models. CIBB Marzio Pennisi, Giulia Russo, Giuseppe Sgroi, Giuseppe Alessandro Parasiliti Palumbo, Francesco Pappalardo
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
2019	J	`jnl`	POSITION PAPER: Credibility of In Silico Trial Technologies: A Theoretical Framing. CoRR Marco Viceconti, Miguel A. Juárez, Cristina Curreli, Marzio Pennisi, Giulia Russo, Francesco Pappalardo
2019	J	`jnl`	Parallelisation strategies for agent based simulation of immune systems. BMC Bioinform. Mozhgan Kabiri Chimeh, Peter Heywood, Marzio Pennisi, Francesco Pappalardo, Paul Richmond
2019	J	`jnl`	Predicting the artificial immunity induced by RUTI® vaccine against tuberculosis using universal immune system simulator (UISS). BMC Bioinform. Marzio Pennisi, Giulia Russo, Giuseppe Sgroi, Angela Bonaccorso, Giuseppe Alessandro Parasiliti Palumbo, Epifanio Fichera, Dipendra Kumar Mitra, Kenneth B. Walker, Pere-Joan Cardona, Merce Amat, Marco Viceconti, Francesco Pappalardo
2019	J	`jnl`	Toward computational modelling on immune system function. BMC Bioinform. Francesco Pappalardo, Marzio Pennisi, Pedro A. Reche, Giulia Russo
2018	—	`conf`	Agent based modeling of relapsing multiple sclerosis: a possible approach to predict treatment outcome. BIBM Francesco Pappalardo, Giulia Russo, Marzio Pennisi, Giuseppe Sgroi, Giuseppe Alessandro Parasiliti Palumbo, Santo Motta, Davide Maimone, Ferdinando Chiacchio
2018	—	`conf`	An agent based modeling approach for the analysis of tuberculosis - immune system dynamics. BIBM Francesco Pappalardo, Giulia Russo, Marzio Pennisi, Giuseppe Sgroi, Giuseppe Alessandro Parasiliti Palumbo, Santo Motta, Epifanio Fichera
2018	—	`conf`	BIOESOnet: A Tool for the Generation of Personalized Human Metabolic Pathways from 23andMe Exome Data. ICIC (2) Marzio Pennisi, Gabriele Forzano, Giulia Russo, Barbara Tomasello, Marco Favetta, Marcella Renis, Francesco Pappalardo
2018	C	`conf`	Combining Parallel Genetic Algorithms and Machine Learning to Improve the Research of Optimal Vaccination Protocols. PDP Marzio Pennisi, Giulia Russo, Francesco Pappalardo
2018	J	`jnl`	Continuous Petri Nets and microRNA Analysis in Melanoma. IEEE ACM Trans. Comput. Biol. Bioinform. Giulia Russo, Marzio Pennisi, Roberta Boscarino, Francesco Pappalardo
2018	—	`conf`	Efficient and Settings-Free Calibration of Detailed Kinetic Metabolic Models with Enzyme Isoforms Characterization. CIBB Niccoló Totis, Andrea Tangherloni, Marco Beccuti, Paolo Cazzaniga, Marco S. Nobile, Daniela Besozzi, Marzio Pennisi, Francesco Pappalardo
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	—	`conf`	Parallel Pair-Wise Interaction for Multi-Agent Immune Systems Modelling. BIBM Mozhgan K. Chimeh, Peter Heywood, Marzio Pennisi, Francesco Pappalardo, Paul Richmond
2017	—	`conf`	2DIs: A SBML Compliant Web Platform for the Design and Modeling of Immune System Interactions. ICIC (2) Marzio Pennisi, Giulia Russo, Giuseppe Sgroi, Giuseppe Parasiliti, Francesco Pappalardo
2017	—	`conf`	A mathematical model to study breast cancer growth. BIBM Giorgia Chivassa, Chiara Fornari, Roberta Sirovich, Marzio Pennisi, Marco Beccuti, Francesca Cordero
2017	J	`jnl`	Combining agent based-models and virtual screening techniques to predict the best citrus-derived vaccine adjuvants against human papilloma virus. BMC Bioinform. Marzio Pennisi, Giulia Russo, Silvia Ravalli, Francesco Pappalardo
2017	—	`conf`	Introducing scale factor adjustments on agent-based simulations of the immune system. BIBM Juan A. Sanchez-Lantaron, Pedro A. Reche, Marzio Pennisi, Giulia Russo, Francesco Pappalardo
2017	—	`conf`	Modeling PI3K/PDK1/Akt and MAPK Signaling Pathways Using Continuous Petri Nets. ICIC (2) Giulia Russo, Marzio Pennisi, Roberta Boscarino, Francesco Pappalardo
2017	—	`conf`	Optimization and analisys of vaccination schedules using simulated annealing and agent based models. BIBM Marzio Pennisi, Juan A. Sanchez-Lantaron, Pedro A. Reche, Giulia Russo, Francesco Pappalardo
2016	J	`jnl`	A computational model to predict the immune system activation by citrus-derived vaccine adjuvants. Bioinform. Francesco Pappalardo, Epifanio Fichera, Nicoletta Paparone, Alessandro Lombardo, Marzio Pennisi, Giulia Russo, Marco Leotta, Alessandro Pedretti, Francesco De Fiore, Santo Motta
2016	J	`jnl`	A methodological approach for using high-level Petri Nets to model the immune system response. BMC Bioinform. Marzio Pennisi, Salvatore Cavalieri, Santo Motta, Francesco Pappalardo
2016	J	`jnl`	SHyFTA, a Stochastic Hybrid Fault Tree Automaton for the modelling and simulation of dynamic reliability problems. Expert Syst. Appl. Ferdinando Chiacchio, Diego D'Urso, Lucio Compagno, Marzio Pennisi, Francesco Pappalardo, Gabriele Manno
2015	J	`jnl`	Computational modeling of the expansion of human cord blood CD133 Bioinform. Francesca Gullo, Mark van der Garde, Giulia Russo, Marzio Pennisi, Santo Motta, Francesco Pappalardo, Suzanne Watt
2014	J	`jnl`	Induction of T-cell memory by a dendritic cell vaccine: a computational model. Bioinform. Francesco Pappalardo, Marzio Pennisi, Alessia Ricupito, Francesco Topputo, Matteo Bellone
2014	—	`conf`	OntoFast: Construct Ontology Rapidly. KESW Abdul Mateen Rajput, Marzio Pennisi, Santo Motta, Francesco Pappalardo
2014	—	`conf`	Relapsing-remitting multiple scleroris and the role of vitamin D: an agent based model. BCB Francesco Pappalardo, Marzio Pennisi, Abdul Mateen Rajput, Ferdinando Chiacchio, Santo Motta
2013	J	`jnl`	Agent based modeling of Treg-Teff cross regulation in relapsing-remitting multiple sclerosis. BMC Bioinform. Marzio Pennisi, Abdul Mateen Rajput, Luca Toldo, Francesco Pappalardo
2013	—	`conf`	iAtheroSim: atherosclerosis process simulator on smart devices. BCB Francesco Pappalardo, Marzio Pennisi, Ferdinando Chiacchio, Salvatore Musumeci, Santo Motta
2012	J	`jnl`	A Mathematical Model of Immune-System-Melanoma Competition. Comput. Math. Methods Medicine Marzio Pennisi
2012	J	`jnl`	Mathematical modeling of the immune system recognition to mammary carcinoma antigen. BMC Bioinform. Carlo Bianca, Ferdinando Chiacchio, Francesco Pappalardo, Marzio Pennisi
2011	—	`conf`	Predicting Long-Term Vaccine Efficacy against Metastases Using Agents. ICIC (3) Marzio Pennisi, Dario Motta, Alessandro Cincotti, Francesco Pappalardo
2010	—	`conf`	Cancer Immunoprevention: What Can We Learn from in Silico Models? ICIC (3) Francesco Pappalardo, Marzio Pennisi, Alessandro Cincotti, Ferdinando Chiacchio, Santo Motta, Pierluigi Lollini
2010	—	`conf`	GRIDUISS - A Grid Based Universal Immune System Simulator Framework. ICIC (1) Francesco Pappalardo, Marzio Pennisi, Ferdinando Chiacchio, Alessandro Cincotti, Santo Motta
2010	J	`jnl`	Modeling the competition between lung metastases and the immune system using agents. BMC Bioinform. Marzio Pennisi, Francesco Pappalardo, Arianna Palladini, Giordano Nicoletti, Patrizia Nanni, Pierluigi Lollini, Santo Motta
2010	—	`conf`	Universal immune system simulator framework (UISS). BCB Francesco Pappalardo, Marzio Pennisi, Santo Motta
2009	—	`conf`	Agent Based Modeling of Atherosclerosis: A Concrete Help in Personalized Treatments. ICIC (2) Francesco Pappalardo, Alessandro Cincotti, Alfredo Motta, Marzio Pennisi
2009	—	`conf`	Agent Based Modeling of Lung Metastasis-Immune System Competition. ICARIS Marzio Pennisi, Francesco Pappalardo, Santo Motta
2009	—	`conf`	HAMFAST: Fast Hamming Distance Computation. CSIE (1) Francesco Pappalardo, Cristiano Calonaci, Marzio Pennisi, Emilio Mastriani, Santo Motta
2009	J	`jnl`	ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization. Briefings Bioinform. Francesco Pappalardo, Mark D. Halling-Brown, Nicolas Rapin, Ping Zhang, Davide Alemani, Andrew P. J. Emerson, Paola Paci, Patrice Duroux, Marzio Pennisi, Arianna Palladini, Olivo Miotto, Daniel Churchill, Elda Rossi, Adrian J. Shepherd, David S. Moss, Filippo Castiglione, Massimo Bernaschi, Marie-Paule Lefranc, Søren Brunak, Santo Motta, Pierluigi Lollini, Kaye E. Basford, Vladimir Brusic
2009	J	`jnl`	Simulated Annealing and Optimal Protocols. J. Circuits Syst. Comput. Marzio Pennisi, Roberto Catanuto, Francesco Pappalardo, Santo Motta, Emilio Mastriani, Alessandro Cincotti
2009	—	`conf`	The ImmunoGrid Simulator: How to Use It. CIBB Francesco Pappalardo, Mark D. Halling-Brown, Marzio Pennisi, Ferdinando Chiacchio, Clare Sansom, Adrian J. Shepherd, David S. Moss, Santo Motta, Vladimir Brusic
2008	J	`jnl`	Optimal vaccination schedules using simulated annealing. Bioinform. Marzio Pennisi, Roberto Catanuto, Francesco Pappalardo, Santo Motta
2007	—	`conf`	A Genetic Algorithm for Shortest Path Motion Problem in Three Dimensions. ICIC (2) Marzio Pennisi, Francesco Pappalardo, Alfredo Motta, Alessandro Cincotti
2007	—	`conf`	Towards a Personalized Schedule with Triplex Vaccine. WILF Francesco Pappalardo, Santo Motta, Pierluigi Lollini, Emilio Mastriani, Marzio Pennisi