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2020 – today
- 2024
- [j29]Elvio Gilberto Amparore
, Marco Beccuti
, Paolo Castagno
, Simone Pernice
, Giuliana Franceschinis
, Marzio Pennisi
:
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. 9(1): 1:1-1:30 (2024) - 2023
- [j28]Alessio Bottrighi
, Marzio Pennisi
:
Exploring the State of Machine Learning and Deep Learning in Medicine: A Survey of the Italian Research Community. Inf. 14(9): 513 (2023) - [c44]William Cavallaro, Marzio Pennisi, Evdoxia Kyriazopoulou, Giulia Russo, Maria Cristina Jori, Evangelos J. Giamarellos-Bourboulis, Francesco Pappalardo
:
Modeling and Simulation of anakinra effects on severe COVID19 Patients. BIBM 2023: 3684-3691 - [c43]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:
OmniReprodubileCellAnalysis: a comprehensive toolbox for the analysis of cellular biology data. BIBM 2023: 3748-3755 - [c42]Marzio Pennisi
, Elvio G. Amparore
, Giuliana Franceschinis
:
Exploiting Structural Dependency Relations for Efficient Agent Based Model Simulation. EPEW 2023: 353-368 - 2022
- [j27]Alessio Bottrighi, Marzio Pennisi, Annalisa Roveta
, Costanza Massarino, Antonella Cassinari, Marta Betti, Tatiana Bolgeo, Marinella Bertolotti, Emanuele Rava, Antonio Maconi:
A machine learning approach for predicting high risk hospitalized patients with COVID-19 SARS-Cov-2. BMC Medical Informatics Decis. Mak. 22(1): 340 (2022) - [c41]Paul Richmond, Matthew Leach, Peter Heywood, Francesco Pappalardo
, Giulia Russo, Marzio Pennisi:
UISS-GPU: Accelerated In-Silico Tuberculosis Vaccine Trials Using FLAME GPU. BIBM 2022: 3562-3568 - 2021
- [j26]Giulia Russo, Giuseppe Alessandro Parasiliti Palumbo
, Marzio Pennisi, Francesco Pappalardo
:
Model verification tools: a computational framework for verification assessment of mechanistic agent-based models. BMC Bioinform. 22-S(14): 626 (2021) - [c40]Elvio Gilberto Amparore, Marco Beccuti, Paolo Castagno, Giuliana Franceschinis, Marzio Pennisi, Simone Pernice:
Multiformalism modeling and simulation of immune system mechanisms. BIBM 2021: 3259-3266 - [c39]Marzio Pennisi:
Multi-scale Agent-based Models in Immunology. A Short Review. CIKM Workshops 2021 - [c38]Marta Betti, Marinella Bertolotti, Tatiana Bolgeo, Alessio Bottrighi, Antonella Cassinari, Antonio Maconi, Costanza Massarino, Marzio Pennisi, Emanuele Rava, Annalisa Roveta
:
A Preliminary Analysis of Hospitalized Covid-19 Patients in Alessandria Area: a machine learning approach. COINS 2021: 1-6 - [c37]Marco Beccuti, Paolo Castagno, Giuliana Franceschinis, Marzio Pennisi, Simone Pernice
:
A Petri Net Formalism to Study Systems at Different Scales Exploiting Agent-Based and Stochastic Simulations. EPEW 2021: 22-43 - 2020
- [j25]Miguel A. Juárez
, Marzio Pennisi, Giulia Russo
, Dimitrios Kiagias, Cristina Curreli, Marco Viceconti
, Francesco Pappalardo
:
Generation of digital patients for the simulation of tuberculosis with UISS-TB. BMC Bioinform. 21-S(17): 449 (2020) - [j24]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
:
Moving forward through the in silico modeling of tuberculosis: a further step with UISS-TB. BMC Bioinform. 21-S(17): 458 (2020) - [j23]Giulia Russo
, Marzio Pennisi, Epifanio Fichera
, Santo Motta, Giuseppina Raciti, Marco Viceconti
, Francesco Pappalardo
:
In silico trial to test COVID-19 candidate vaccines: a case study with UISS platform. BMC Bioinform. 21-S(17): 527 (2020) - [j22]Simone Pernice
, Laura Follia, Alessandro Maglione
, Marzio Pennisi, Francesco Pappalardo
, Francesco Novelli, Marinella Clerico
, Marco Beccuti
, Francesca Cordero, Simona Rolla:
Computational modeling of the immune response in multiple sclerosis using epimod framework. BMC Bioinform. 21-S(17): 550 (2020) - [j21]Marco Viceconti
, Miguel A. Juárez
, Cristina Curreli
, Marzio Pennisi
, Giulia Russo
, Francesco Pappalardo
:
Credibility of In Silico Trial Technologies - A Theoretical Framing. IEEE J. Biomed. Health Informatics 24(1): 4-13 (2020) - [c36]Giuseppe Alessandro Parasiliti Palumbo, Giulia Russo
, Giuseppe Sgroi, Marco Viceconti, Marzio Pennisi, Cristina Curreli, Francesco Pappalardo
:
Verify: a toolbox for deterministic verification of computational models. BIBM 2020: 1262-1267 - [c35]Giuseppe Sgroi, Marzio Pennisi, Giulia Russo
, Francesco Pappalardo
, Giuseppe Alessandro Parasiliti Palumbo:
Evaluation of the predictive capability of PETAL tool: a retrospective study on potential tyrosine kinases drug resistance targets. BIBM 2020: 1275-1280 - [i5]Giulia Russo, Marzio Pennisi, Marco Viceconti, Francesco Pappalardo:
In Silico Trial to test COVID-19 candidate vaccines: a case study with UISS platform. CoRR abs/2005.02289 (2020) - [i4]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:
Multiple Sclerosis disease: a computational approach for investigating its drug interactions. CoRR abs/2006.00813 (2020)
2010 – 2019
- 2019
- [j20]Fiorenza Gianì
, Giulia Russo
, Marzio Pennisi
, Laura Sciacca, Francesco Frasca
, Francesco Pappalardo
:
Computational modeling reveals MAP3K8 as mediator of resistance to vemurafenib in thyroid cancer stem cells. Bioinform. 35(13): 2267-2275 (2019) - [j19]Saverio Candido
, Giuseppe Alessandro Parasiliti Palumbo
, Marzio Pennisi
, Giulia Russo
, Giuseppe Sgroi
, Valentina Di Salvatore
, Massimo Libra, Francesco Pappalardo
:
EpiMethEx: a tool for large-scale integrated analysis in methylation hotspots linked to genetic regulation. BMC Bioinform. 19-S(13): 43-53 (2019) - [j18]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
:
Predicting the artificial immunity induced by RUTI® vaccine against tuberculosis using universal immune system simulator (UISS). BMC Bioinform. 20-S(6): 504 (2019) - [j17]Mozhgan Kabiri Chimeh
, Peter Heywood, Marzio Pennisi, Francesco Pappalardo
, Paul Richmond
:
Parallelisation strategies for agent based simulation of immune systems. BMC Bioinform. 20-S(6): 579 (2019) - [j16]Francesco Pappalardo
, Marzio Pennisi, Pedro A. Reche
, Giulia Russo
:
Toward computational modelling on immune system function. BMC Bioinform. 20-S(6): 622 (2019) - [j15]Simone Pernice
, Marzio Pennisi, Greta Romano, Alessandro Maglione
, Santina Cutrupi, Francesco Pappalardo
, Gianfranco Balbo, Marco Beccuti
, Francesca Cordero, Raffaele A. Calogero
:
A computational approach based on the colored Petri net formalism for studying multiple sclerosis. BMC Bioinform. 20-S(6): 623 (2019) - [c34]Giuseppe Alessandro Parasiliti Palumbo, Pietro Biondi
, Giuseppe Sgroi, Marzio Pennisi, Giulia Russo
, Francesco Pappalardo
:
A MapReduce tool for in-depth analysis of KEGG pathways: identification and visualization of therapeutic target candidates. BIBM 2019: 2157-2162 - [c33]Marzio Pennisi, Miguel A. Juárez, Giulia Russo
, Marco Viceconti
, Francesco Pappalardo
:
Generation of digital patients for the simulation of tuberculosis with UISS-TB. BIBM 2019: 2163-2167 - [c32]Simone Pernice
, Greta Romano, Giulia Russo
, Marco Beccuti, Marzio Pennisi, Francesco Pappalardo
:
Exploiting Stochastic Petri Net formalism to capture the Relapsing Remitting Multiple Sclerosis variability under Daclizumab administration. BIBM 2019: 2168-2175 - [c31]Giulia Russo
, Francesco Pappalardo
, Miguel A. Juárez
, Marzio Pennisi, Pere-Joan Cardona
, Rhea Coler, Epifanio Fichera, Marco Viceconti
:
Evaluation of the efficacy of RUTI and ID93/GLA-SE vaccines in tuberculosis treatment: in silico trial through UISS-TB simulator. BIBM 2019: 2197-2201 - [c30]Valentina Di Salvatore
, Fiorenza Gianì
, Giulia Russo
, Marzio Pennisi, Pasqualino Malandrino
, Francesco Frasca
, Francesco Pappalardo
:
Gene expression and pathway bioinformatics analysis detect a potential predictive value of MAP3K8 in thyroid cancer progression. BIBM 2019: 2202-2206 - [c29]Marzio Pennisi
, Giulia Russo
, Giuseppe Sgroi
, Giuseppe Alessandro Parasiliti Palumbo
, Francesco Pappalardo
:
In Silico Evaluation of Daclizumab and Vitamin D Effects in Multiple Sclerosis Using Agent Based Models. CIBB 2019: 285-298 - [c28]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:
Multiple Sclerosis Disease: A Computational Approach for Investigating Its Drug Interactions. CIBB 2019: 299-308 - [c27]Giuseppe Parasiliti
, Marzio Pennisi
, Pietro Biondi
, Giuseppe Sgroi
, Giulia Russo
, Christian Napoli
, Francesco Pappalardo
:
A MapReduce Based Tool for the Analysis and Discovery of Novel Therapeutic Targets. PDP 2019: 323-328 - [r1]Marta Gomez-Perosanz, Giulia Russo
, Jose Luis Sanchez-Trincado Lopez, Marzio Pennisi, Pedro A. Reche
, Adrian J. Shepherd, Francesco Pappalardo
:
Computational Immunogenetics. Encyclopedia of Bioinformatics and Computational Biology (2) 2019: 906-930 - [i3]Marco Viceconti, Miguel A. Juárez, Cristina Curreli, Marzio Pennisi, Giulia Russo, Francesco Pappalardo:
POSITION PAPER: Credibility of In Silico Trial Technologies: A Theoretical Framing. CoRR abs/1909.04660 (2019) - [i2]Valentina Di Salvatore, Fiorenza Gianì, Giulia Russo, Marzio Pennisi, Pasqualino Malandrino, Francesco Frasca, Francesco Pappalardo:
Gene expression and pathway bioinformatics analysis detect a potential predictive value of MAP3K8 in thyroid cancer progression. CoRR abs/1910.12055 (2019) - [i1]Marzio Pennisi, Miguel A. Juárez, Giulia Russo, Marco Viceconti, Francesco Pappalardo:
Generation of digital patients for the simulation of tuberculosis with UISS-TB. CoRR abs/1910.12293 (2019) - 2018
- [j14]Giulia Russo
, Marzio Pennisi
, Roberta Boscarino, Francesco Pappalardo
:
Continuous Petri Nets and microRNA Analysis in Melanoma. IEEE ACM Trans. Comput. Biol. Bioinform. 15(5): 1492-1499 (2018) - [c26]Mozhgan K. Chimeh
, Peter Heywood, Marzio Pennisi
, Francesco Pappalardo
, Paul Richmond
:
Parallel Pair-Wise Interaction for Multi-Agent Immune Systems Modelling. BIBM 2018: 1367-1373 - [c25]Francesco Pappalardo
, Giulia Russo
, Marzio Pennisi
, Giuseppe Sgroi
, Giuseppe Alessandro Parasiliti Palumbo
, Santo Motta, Davide Maimone, Ferdinando Chiacchio:
Agent based modeling of relapsing multiple sclerosis: a possible approach to predict treatment outcome. BIBM 2018: 1380-1385 - [c24]Francesco Pappalardo
, Giulia Russo
, Marzio Pennisi
, Giuseppe Sgroi
, Giuseppe Alessandro Parasiliti Palumbo
, Santo Motta, Epifanio Fichera:
An agent based modeling approach for the analysis of tuberculosis - immune system dynamics. BIBM 2018: 1386-1392 - [c23]Simone Pernice
, Marco Beccuti, Pietro Do', Marzio Pennisi
, Francesco Pappalardo
:
Estimating Daclizumab effects in Multiple Sclerosis using Stochastic Symmetric Nets. BIBM 2018: 1393-1400 - [c22]Niccoló Totis
, Andrea Tangherloni
, Marco Beccuti
, Paolo Cazzaniga
, Marco S. Nobile
, Daniela Besozzi
, Marzio Pennisi
, Francesco Pappalardo
:
Efficient and Settings-Free Calibration of Detailed Kinetic Metabolic Models with Enzyme Isoforms Characterization. CIBB 2018: 187-202 - [c21]Marco Beccuti, Paolo Cazzaniga, Marzio Pennisi
, Daniela Besozzi, Marco S. Nobile, Simone Pernice
, Giulia Russo
, Andrea Tangherloni
, Francesco Pappalardo
:
GPU Accelerated Analysis of Treg-Teff Cross Regulation in Relapsing-Remitting Multiple Sclerosis. Euro-Par Workshops 2018: 626-637 - [c20]Marzio Pennisi
, Gabriele Forzano, Giulia Russo
, Barbara Tomasello
, Marco Favetta
, Marcella Renis, Francesco Pappalardo
:
BIOESOnet: A Tool for the Generation of Personalized Human Metabolic Pathways from 23andMe Exome Data. ICIC (2) 2018: 345-352 - [c19]Marzio Pennisi
, Giulia Russo
, Francesco Pappalardo
:
Combining Parallel Genetic Algorithms and Machine Learning to Improve the Research of Optimal Vaccination Protocols. PDP 2018: 399-405 - 2017
- [j13]Marzio Pennisi
, Giulia Russo
, Silvia Ravalli
, Francesco Pappalardo
:
Combining agent based-models and virtual screening techniques to predict the best citrus-derived vaccine adjuvants against human papilloma virus. BMC Bioinform. 18(16): 87-97 (2017) - [c18]Giorgia Chivassa, Chiara Fornari, Roberta Sirovich, Marzio Pennisi
, Marco Beccuti
, Francesca Cordero
:
A mathematical model to study breast cancer growth. BIBM 2017: 1438-1445 - [c17]Marzio Pennisi
, Juan A. Sanchez-Lantaron, Pedro A. Reche
, Giulia Russo
, Francesco Pappalardo
:
Optimization and analisys of vaccination schedules using simulated annealing and agent based models. BIBM 2017: 1455-1460 - [c16]Juan A. Sanchez-Lantaron, Pedro A. Reche
, Marzio Pennisi
, Giulia Russo
, Francesco Pappalardo
:
Introducing scale factor adjustments on agent-based simulations of the immune system. BIBM 2017: 1461-1468 - [c15]Marzio Pennisi
, Giulia Russo
, Giuseppe Sgroi
, Giuseppe Parasiliti
, Francesco Pappalardo
:
2DIs: A SBML Compliant Web Platform for the Design and Modeling of Immune System Interactions. ICIC (2) 2017: 145-154 - [c14]Giulia Russo
, Marzio Pennisi
, Roberta Boscarino, Francesco Pappalardo
:
Modeling PI3K/PDK1/Akt and MAPK Signaling Pathways Using Continuous Petri Nets. ICIC (2) 2017: 169-175 - 2016
- [j12]Francesco Pappalardo
, Epifanio Fichera
, Nicoletta Paparone, Alessandro Lombardo, Marzio Pennisi
, Giulia Russo
, Marco Leotta, Alessandro Pedretti, Francesco De Fiore, Santo Motta:
A computational model to predict the immune system activation by citrus-derived vaccine adjuvants. Bioinform. 32(17): 2672-2680 (2016) - [j11]Marzio Pennisi
, Salvatore Cavalieri
, Santo Motta, Francesco Pappalardo
:
A methodological approach for using high-level Petri Nets to model the immune system response. BMC Bioinform. 17(S-19): 91-105 (2016) - [j10]Ferdinando Chiacchio
, Diego D'Urso, Lucio Compagno, Marzio Pennisi
, Francesco Pappalardo
, Gabriele Manno:
SHyFTA, a Stochastic Hybrid Fault Tree Automaton for the modelling and simulation of dynamic reliability problems. Expert Syst. Appl. 47: 42-57 (2016) - 2015
- [j9]Francesca Gullo, Mark van der Garde, Giulia Russo
, Marzio Pennisi
, Santo Motta, Francesco Pappalardo
, Suzanne Watt:
Computational modeling of the expansion of human cord blood CD133+ hematopoietic stem/progenitor cells with different cytokine combinations. Bioinform. 31(15): 2514-2522 (2015) - 2014
- [j8]Francesco Pappalardo
, Marzio Pennisi
, Alessia Ricupito, Francesco Topputo, Matteo Bellone
:
Induction of T-cell memory by a dendritic cell vaccine: a computational model. Bioinform. 30(13): 1884-1891 (2014) - [c13]Francesco Pappalardo
, Marzio Pennisi
, Abdul Mateen Rajput, Ferdinando Chiacchio, Santo Motta
:
Relapsing-remitting multiple scleroris and the role of vitamin D: an agent based model. BCB 2014: 744-748 - [c12]Abdul Mateen Rajput, Marzio Pennisi, Santo Motta, Francesco Pappalardo
:
OntoFast: Construct Ontology Rapidly. KESW 2014: 237-241 - 2013
- [j7]Marzio Pennisi
, Abdul Mateen Rajput, Luca Toldo
, Francesco Pappalardo
:
Agent based modeling of Treg-Teff cross regulation in relapsing-remitting multiple sclerosis. BMC Bioinform. 14(S-16): S9 (2013) - [c11]Francesco Pappalardo
, Marzio Pennisi
, Ferdinando Chiacchio, Salvatore Musumeci, Santo Motta
:
iAtheroSim: atherosclerosis process simulator on smart devices. BCB 2013: 815 - 2012
- [j6]Carlo Bianca
, Ferdinando Chiacchio, Francesco Pappalardo
, Marzio Pennisi
:
Mathematical modeling of the immune system recognition to mammary carcinoma antigen. BMC Bioinform. 13(S-17): S21 (2012) - [j5]Marzio Pennisi
:
A Mathematical Model of Immune-System-Melanoma Competition. Comput. Math. Methods Medicine 2012: 850754:1-850754:13 (2012) - 2011
- [c10]Marzio Pennisi
, Dario Motta, Alessandro Cincotti, Francesco Pappalardo
:
Predicting Long-Term Vaccine Efficacy against Metastases Using Agents. ICIC (3) 2011: 97-106 - 2010
- [j4]Marzio Pennisi
, Francesco Pappalardo
, Arianna Palladini, Giordano Nicoletti, Patrizia Nanni
, Pierluigi Lollini
, Santo Motta
:
Modeling the competition between lung metastases and the immune system using agents. BMC Bioinform. 11(S-7): S13 (2010) - [c9]Francesco Pappalardo
, Marzio Pennisi
, Santo Motta
:
Universal immune system simulator framework (UISS). BCB 2010: 649-650 - [c8]Francesco Pappalardo
, Marzio Pennisi
, Alessandro Cincotti, Ferdinando Chiacchio, Santo Motta
, Pierluigi Lollini
:
Cancer Immunoprevention: What Can We Learn from in Silico Models? ICIC (3) 2010: 111-118 - [c7]Francesco Pappalardo
, Marzio Pennisi
, Ferdinando Chiacchio, Alessandro Cincotti, Santo Motta
:
GRIDUISS - A Grid Based Universal Immune System Simulator Framework. ICIC (1) 2010: 285-290
2000 – 2009
- 2009
- [j3]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
:
ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization. Briefings Bioinform. 10(3): 330-340 (2009) - [j2]Marzio Pennisi
, Roberto Catanuto, Francesco Pappalardo
, Santo Motta
, Emilio Mastriani
, Alessandro Cincotti:
Simulated Annealing and Optimal Protocols. J. Circuits Syst. Comput. 18(8): 1565-1579 (2009) - [c6]Francesco Pappalardo
, Mark D. Halling-Brown, Marzio Pennisi
, Ferdinando Chiacchio, Clare Sansom, Adrian J. Shepherd, David S. Moss, Santo Motta
, Vladimir Brusic
:
The ImmunoGrid Simulator: How to Use It. CIBB 2009: 1-19 - [c5]Francesco Pappalardo
, Cristiano Calonaci, Marzio Pennisi
, Emilio Mastriani
, Santo Motta
:
HAMFAST: Fast Hamming Distance Computation. CSIE (1) 2009: 569-572 - [c4]Marzio Pennisi
, Francesco Pappalardo
, Santo Motta
:
Agent Based Modeling of Lung Metastasis-Immune System Competition. ICARIS 2009: 1-3 - [c3]Francesco Pappalardo
, Alessandro Cincotti, Alfredo Motta, Marzio Pennisi
:
Agent Based Modeling of Atherosclerosis: A Concrete Help in Personalized Treatments. ICIC (2) 2009: 386-396 - 2008
- [j1]Marzio Pennisi
, Roberto Catanuto, Francesco Pappalardo
, Santo Motta
:
Optimal vaccination schedules using simulated annealing. Bioinform. 24(15): 1740-1742 (2008) - 2007
- [c2]Marzio Pennisi, Francesco Pappalardo
, Alfredo Motta, Alessandro Cincotti:
A Genetic Algorithm for Shortest Path Motion Problem in Three Dimensions. ICIC (2) 2007: 534-542 - [c1]Francesco Pappalardo
, Santo Motta, Pierluigi Lollini, Emilio Mastriani
, Marzio Pennisi:
Towards a Personalized Schedule with Triplex Vaccine. WILF 2007: 620-626
Coauthor Index
aka: Giuseppe Parasiliti
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last updated on 2024-08-05 21:23 CEST by the dblp team
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