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Modeling and simulation of cancer immunoprevention vaccine

F. Pappalardo, P.-L. Lollini, F. Castiglione, S. Motta
2005 Bioinformatics  
We present an in silico model that simulates the immune system responses to tumor cells in naive and vaccinated mice.  ...  Our in silico model was able to closely reproduce the effects of various vaccination protocols.  ...  The most thoroughly investigated model of cancer immunoprevention is the mammary carcinoma of HER-2/neu transgenic mouse.  ... 
doi:10.1093/bioinformatics/bti426 pmid:15817697 fatcat:gqae7xn7cza6vfgr6gdqvcnuf4

Analysis of vaccine's schedules using models

F. Pappalardo, S. Motta, P.-L. Lollini, E. Mastriani
2006 Cellular Immunology  
We present a further, yet important, step in applying Catania Mouse Model & simulator (SimTriplex) of immune system response to vaccination.  ...  In particular we show that, as immune response can induce toxicity, one can calibrate the vaccine administrations in such a way to avoid toxicity effects, keeping immunoprevention from cancer.  ...  PLL acknowledges financial support from the University of Bologna, the Department of Experimental Pathology (''Pallotti'' fund), MIUR and the Italian Association for Cancer Research (AIRC).  ... 
doi:10.1016/j.cellimm.2007.03.002 pmid:17442286 fatcat:jmumqu3da5ehlclh7on5clk4g4

Genetic Algorithm Against Cancer [chapter]

F. Pappalardo, E. Mastriani, P. -L. Lollini, S. Motta
2006 Lecture Notes in Computer Science  
Our study is based on our previous model that simulates the Cancer -Immune System competition activated by a tumor vaccine.  ...  The model reproduces pre-clinical results obtained for an immunoprevention cancer vaccine (Triplex) for mammary carcinoma on HER-2/neu mice.  ...  To our best knowledge, very few applications 1 use a complete simulator in a genetic algorithm and no applications of this type exist in cancer immunoprevention.  ... 
doi:10.1007/11676935_27 fatcat:5pr3vpkhbvfnbhp4jfp7s3nojq

In silico Modeling and In vivo Efficacy of Cancer-Preventive Vaccinations

A. Palladini, G. Nicoletti, F. Pappalardo, A. Murgo, V. Grosso, V. Stivani, M. L. Ianzano, A. Antognoli, S. Croci, L. Landuzzi, C. De Giovanni, P. Nanni (+2 others)
2010 Cancer Research  
Our results show that an integrated in vivo-in silico approach could improve both mathematical and biological models of cancer immunoprevention. Cancer Res; 70(20); 7755-63. ©2010 AACR.  ...  Finally, design and modeling of cancer vaccines and vaccination protocols must take into account the progressive aging of the immune system, and strive to boost antitumor immune responses in elderly hosts  ...  Disclosure of Potential Conflicts of Interest No potential conflicts of interest were disclosed. Grant Support  ... 
doi:10.1158/0008-5472.can-10-0701 pmid:20924100 fatcat:nbdfwjp5cnhntjhnxdxvpszfd4

Mathematical and Computational Models in Tumor Immunology

F. Pappalardo, A. Palladini, M. Pennisi, F. Castiglione, S. Motta
2012 Mathematical Modelling of Natural Phenomena  
Chiacchio, and S. Motta. Cancer vaccines: state of the art of the computational modeling approaches. D. Alemani, F. Pappalardo, M. Pennisi, S. Motta, and V. Brusic.  ...  Combining cellular automata and lattice Boltzmann method to model multiscale avascular tumor growth coupled with nutrient diffusion and immune competition.  ...  Castiglione, and S. Motta, 2005. "Modelling and simulation of cancer immunoprevention vaccine" Bioinformatics, 21:12 (2005) 2891-2897. [IF 6.019] 82 S. Motta, F. Castiglione, P.-L. Lollini, F.  ... 
doi:10.1051/mmnp/20127312 fatcat:pneatkorf5d7bfp7hjbodsxyau

Model Deconstruction of an Immunoprevention Vaccine [chapter]

F. Pappalardo, P. -L. Lollini, S. Motta, E. Mastriani
2006 Lecture Notes in Computer Science  
Our study is based on our previous model that simulates the cancer -immune System competition activated by a tumor vaccine.  ...  We present a further step in developing an in silico model that simulates the immune system responses to tumor cells in vaccinated mice.  ...  cells ↔ cancer cells; here we allow a natural killer cell to kill a cancer cell coated by antibodies only if there is a sufficient amount of interleukin 12, we have set up accordingly to in vivo experiments  ... 
doi:10.1007/11881223_43 fatcat:g7qyybw4yfbvbctnu4vuz2qfxi

Current Issues in Tumor Immunology

Annalisa Astolfi, Pier-Luigi Lollini, Santo Motta, Francesco Pappalardo
2010 Current Bioinformatics  
Cancer immunoprevention is a novel approach to cancer prevention through the use of vaccines and other immunological strategies to be applied before tumor onset.  ...  We show here how a specifically designed lattice gas model can provide significant insight for the analysis of immune variables and the design of new biological experiments.  ...  Keywords: Cancer immunoprevention, systems biology, computational models, DNA microarrays, HER-2/neu.  ... 
doi:10.2174/157489310792006684 fatcat:hfdbpnncdfabnbncq6jveh7tci

ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization

F. Pappalardo, M. D. Halling-Brown, N. Rapin, P. Zhang, D. Alemani, A. Emerson, P. Paci, P. Duroux, M. Pennisi, A. Palladini, O. Miotto, D. Churchill (+11 others)
2008 Briefings in Bioinformatics  
Originally trained as a computer scientist, he holds a masters and PhD in Bioinformatics and is currently involved with developing techniques for improvement of drug discovery for cancer.  ...  Nicolas Rapin holds a masters degree in Food Engineering and Computational Molecular Biology, and a PhD in Bioinformatics and Bio-simulation.  ...  This approach has been used for optimization of immunoprevention vaccine scheduling using SimTriplex in mouse models of mammary cancer.  ... 
doi:10.1093/bib/bbp014 pmid:19383844 fatcat:b6jsotye35g2tcpxwqftgsj7vm


2006 Mathematical Models and Methods in Applied Sciences  
Finally we discuss a first approach to vaccine that prevent tumor onset from a biological point of view and we describe how to reproduce this phenomenon from a computational model.  ...  The aim of this paper is to discuss biological and computational models of tumor-immune system interactions.  ...  In this paper we present a success story in modeling and simulation. We studied the effect of a vaccine which prevents the onset of solid cancer.  ... 
doi:10.1142/s0218202506001479 fatcat:mc4vxdkyjfhkfh3iegildprtau

Searching of optimal vaccination schedules

M. Pennisi, F. Pappalardo, Ping Zhang, S. Motta
2009 IEEE Engineering in Medicine and Biology Magazine  
SimTriplex [8] is a model developed in our previous research, which simulates cancer immunoprevention vaccine.  ...  The problem of defining optimal schedules is particularly acute in cancer immunopreventive approaches, which requires a sequence of vaccine administrations to keep a high level of protective immunity.  ... 
doi:10.1109/memb.2009.932919 pmid:19622427 fatcat:s4qg5ytqkfb2jivnr7azimqpsu

Optimal vaccination schedule search using genetic algorithm over MPI technology

Cristiano Calonaci, Ferdinando Chiacchio, Francesco Pappalardo
2012 BMC Medical Informatics and Decision Making  
An immunopreventive cell vaccine for the non-virus-related human breast cancer has been recently developed.  ...  The computer model developed allowed us to test in silico specific vaccination schedules in the quest for optimality.  ...  We thank CINECA consortium for the use of high performance computing infrastructure.  ... 
doi:10.1186/1472-6947-12-129 pmid:23148787 pmcid:PMC3558354 fatcat:2kbtx4xcnbapbbsrxiywxgswea

Optimal vaccination schedules using simulated annealing

M. Pennisi, R. Catanuto, F. Pappalardo, S. Motta
2008 Bioinformatics  
Since few years the problem of finding optimal solutions for drug or vaccine protocols have been tackled using system biology modeling. These approaches are usually computationally expensive.  ...  Our previous experiences in optimizing vaccine or drug protocols using genetic algorithms required the use of a high performance computing infrastructure for a couple of days.  ...  ACKNOWLEDGEMENTS This work makes use of results produced by the PI2S2 Project managed by the Consorzio COMETA, a project co-funded by the Italian Ministry of University and Research (MIUR) within the Piano  ... 
doi:10.1093/bioinformatics/btn260 pmid:18535084 fatcat:r4mxn6kaozge7mc75b4h2hnnze

Cancer Vaccines: State of the Art of the Computational Modeling Approaches

Francesco Pappalardo, Ferdinando Chiacchio, Santo Motta
2013 BioMed Research International  
Cancer vaccines are a real application of the extensive knowledge of immunology to the field of oncology.  ...  Testing of some cancer vaccine features, such as the best conditions for vaccine administration or the identification of candidate antigenic stimuli, can be very difficult or even impossible only through  ...  Cancer immunotherapy Apply to cancer patients Antibodies Antibodies erapeutic vaccines Cytokines and immune stimulants Cytokines and immune stimulants Cancer immunoprevention Prophylactic  ... 
doi:10.1155/2013/106407 pmid:23484073 pmcid:PMC3591114 fatcat:vaugstner5f37ij2gnayafynky

Universal immune system simulator framework (UISS)

Francesco Pappalardo, Marzio Pennisi, Santo Motta
2010 Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology - BCB '10  
In this paper, the Universal Immune System Simulator (UISS) framework is sketched, showing some of its applications for successfully modeling and simulating multiple immune system related pathologies.  ...  Initially it has been used to model and simulate the immune system responses to mammary carcinoma tumor cells in naive mice and in mice vaccinated with an immunopreventive vaccine (named Triplex), showing  ...  in the field of cancer-vaccines immunotherapy.  ... 
doi:10.1145/1854776.1854900 dblp:conf/bcb/PappalardoPM10 fatcat:vdb2gynmkfgxtmk4beppy73txa

Vaccine protocols optimization: In silico experiences

Francesco Pappalardo, Marzio Pennisi, Filippo Castiglione, Santo Motta
2010 Biotechnology Advances  
Vaccines represent a special class of drugs, capable of stimulating immune system responses against pathogens and tumors.  ...  As the efficacy of a vaccine was demonstrated by biological/chemical investigations and pre-clinical studies, then a major problem is represented by the search for an optimal vaccination dosage.  ...  Acknowledgement This work was partially supported under the EC contract FP6-2004-IST-4, No.028069 (ImmunoGrid, and under EC contract FP6-2005-NEST-PATH, No.043241 (Complex-Dis  ... 
doi:10.1016/j.biotechadv.2009.10.001 pmid:19833190 fatcat:6of44cckene4zblqpabhen2j3i
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