Year: 2011

• Filisetti, A., Graudenzi, A., Serra, R., Villani, M., De Lucrezia, D., Fuchslin, R. M. et al. (2011). A stochastic model of the emergence of autocatalytic cycles. Journal of Systems Chemistry(2:2). [More] [Online version]
• Caschera, F., Bedau, M. A., Buchanan, A., Cawse, J., De Lucrezia, D., Gazzola, G. et al. (2011). Coping with complexity: machine learning optimization of cell-free protein synthesis. Biotechnol Bioeng.. [More]
• Zanconato, S., Minervini, G., Poli, I. & De Lucrezia, D. (2011). Selection Dynamic of Escherichia coli Host in M13 Combinatorial Peptide Phage Display Libraries. Bioscience, Biotechnology, and Biochemistry. [More]
• Cawse, J. N., Gazzola, G. & Packard, N. (2011). Efficient discovery and optimization of complex high-throughput experiments. CATALYSIS TODAY, 159(1), 55-63. [More] [Online version]
• Carletti, T. & Filisetti, A. (2011). The stochastic evolution of a protocell. The Gillespie algorithm in a dyanmically varying volume. Computational and Mathematical Methods in Medicine, in press. [More] [Online version]
• Filisetti, A., Graudenzi, A., Serra, R., Villani, M., Fuchslin, R. M., Kauffman, S. et al. (2011). A stochastic model of autocatalytic reaction networks “Extended version”. Theory in Biosciences, 1-9. [More] [Online version]
• Villani, M., Barbieri, A. & Serra, R. (2011). A dynamical model of genetic networks for cell differentiation. PloS ONE in press. [More]
• Mazzucco, N., Zanconato, S., De Lucrezia, D., Argese, E., Poli, I. & Minervini, G. (2011). Design and dynamic simulation of minimal metallo-proteins. JMMO, in press. [More]

Year: 2010

• Shaw, R. S. & Packard, N. (2010). Leaky Membrane Dynamics. PHYSICAL REVIEW LETTERS, 105(9). [More] [Online version]
• Serra, R., Villani, M., Barbieri, A., Kauffman, S. A. & Colacci, A. (2010). On the dynamics of random Boolean networks subject to noise: Attractors, ergodic sets and cell types. JOURNAL OF THEORETICAL BIOLOGY, 265(2), 185-193. [More] [Online version]
• Filisetti, A., Serra, R., Carletti, T., Villani, M. & Poli, I. (2010). Non-linear protocell models: synchronization and chaos. The European Physical Journal B, 77(2), 249-256. [More] [Online version]
• Caschera, F., Gazzola, G., Bedau, M. A., Moreno, C. B., Buchanan, A., Cawse, J. N. et al. (2010). Automated Discovery of Novel Drug Formulations Using Predictive Iterated High Throughput Experimentation. PLOS ONE, 5(1). [More] [Online version]
• Borrotti, M., De Lucrezia, D., Minervini, G. & Poli, I. (2010). A model based ant colony design for the protein engineering problems. LECTURE NOTES IN COMPUTER SCIENCE, ANTS 2010, 6234, 352-359. [More] [Online version]
• Graudenzi, A., Serra, R., Villani, M., Damiani, C., Colacci, A. & Kauffman, S. A. (2010). Dynamical properties of a Boolean model of gene regulatory network with memory. Journal of Computational Biology, in press. [More]
• Graudenzi, A., Serra, R., Villani, M., Colacci, A. & Kauffman, S. A. (2010). Robustness analysis of a Boolean model of gene regulatory network with memory. Journal of Computational Biology, in press. [More]
• Bedau, M. A., McCaskill, J. S., Packard, N. & Rasmussen, S. (2010). Living Technology: Exploiting Life's Principles in Technology. ARTIFICIAL LIFE, 16(1), 89-97. [More] [Online version]

Year: 2009

• Pepelyshev, A., Poli, I. & Melas, V. (2009). Uniform coverage designs for mixture experiments. JOURNAL OF STATISTICAL PLANNING AND INFERENCE, 139(10), 3442-3452. [More] [Online version]
• Anella, F. A., De Lucrezia, D., Faiella, R., Chiarabelli, C. & Luisi, P. L. (2009). Creating de novo Random RNAs. Implication for the RNA-World. ORIGINS OF LIFE AND EVOLUTION OF BIOSPHERES, 39(3-4, Sp. I), 297-298. [More] [Online version]
• Gorlero, M., Wieczorek, R., Adamala, K., Giorgi, A., Schinina, M. E., Stano, P. et al. (2009). Ser-His catalyses the formation of peptides and PNAs. FEBS LETTERS, 583(1), 153-156. [More]
• Quintarelli, A., Chiarabelli, C., Marcozzi, A., De Lucrezia, D. & Luisi, P. L. (2009). Never Born Proteins and Never Born Peptidases: Investigation of Peptidase Activity in a Totally Random Library. ORIGINS OF LIFE AND EVOLUTION OF BIOSPHERES, 39(3-4), 324-325. [More]
• Marcozzi, A., Chiarabelli, C., Quintarelli, A., De Lucrezia, D. & Luisi, P. L. (2009). Random Sequence Polypeptides: A Model for Understanding the Origins of Natural Proteins. ORIGINS OF LIFE AND EVOLUTION OF BIOSPHERES, 39(3-4), 318-319. [More]
• Chiarabelli, C., De Lucrezia, D., Stano, P. & Luisi, P. L. (2009). The World of the "Never Born Proteins". ORIGINS OF LIFE AND EVOLUTION OF BIOSPHERES, 39(3-4), 308-309. [More]
• Luisi, P. L., Stano, P., De Lucrezia, D., Wieczorek, R. & Chiarabelli, C. (2009). Chemical Synthetic Biology. ORIGINS OF LIFE AND EVOLUTION OF BIOSPHERES, 39(3-4), 209. [More]
• Minervini, G., Evangelista, G., Villanova, L., Slanzi, D., De Lucrezia, D., Poli, I. et al. (2009). Massive non-natural proteins structure prediction using grid technologies. BMC BIOINFORMATICS, 10(Suppl. 6). [More] [Online version]

Year: 2008

• Filisetti, A., Serra, R., Carletti, T., Villani, M. & Poli, I. (2008). Synchronization phenomena in protocell models. Biophysical Reviews and Letters (BRL), 3(1/2), 325-342. [More] [Online version]
• Forlin, M., Poli, I., De March, D., Packard, N., Gazzola, G. & Serra, R. (2008). Evolutionary experiments for self-assembling amphiphilic systems. CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS, 90(2), 153-160. [More]
• Carletti, T., Serra, R., Villani, M., Poli, I. & Filisetti, A. (2008). Sufficient conditions for emergent synchronization in protocell models.. J Theor Biol, 254(4), 741-751. [More] [Online version]

Year: 2007

• McCaskill, J. S., Packard, N., Rasmussen, S. & Bedau, M. A. (2007). Evolutionary self-organization in complex fluids. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 362(1486), 1763-1779. [More]
• Shaw, R. S., Packard, N., Schroter, M. & Swinney, H. L. (2007). Geometry-induced asymmetric diffusion. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 104(23), 9580-9584. [More]
• Roth, C. (2007). Empiricism for descriptive social network models. PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, 378(1), 53-58. [More]
• Serra, R., Carletti, T. & Poli, I. (2007). Surface reaction models of protocells. BIOMAT2006, International Symposium on Mathematical and Computational Biology, (World Scientific, ISBN 978-981-270-768-0). [More]

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