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Pubblicazioni antecedenti il 2004
Journals
[R1] Pietro Di Lena, L. Margara, Row subshifts and topological
entropy of cellular automata. Journal of Cellular Automata, Volume
2 Number 2, 2007, pp. 121-130
[R2] Pietro di Lena and Luciano Margara. Computational complexity
of dynamical systems: the case of cellular automata Information and
Computation, Vol. 206, Issues 9-10 (2008), pp. 1104--1116;
doi:10.1016/j.ic.2008.03.012.
[R3] Marco Vassura, Luciano Margara, Pietro di Lena, Filippo Medri,
Piero Fariselli, Rita Casadio FT-COMAR: fault tolerant
three-dimensional structure reconstruction from protein contact
maps. Bioinformatics, Vol. 24 (2008), pp. 1313--1315; doi:
10.1093/bioinformatics/btn115. Web Service.
[R4] Luciano Margara, Marco Vassura, Pietro di Lena, Filippo Medri,
Piero Fariselli, Rita Casadio Reconstruction of 3D Structures From
Protein Contact Maps IEEE/ACM Transactions on Computational Biology
and Bioinformatics, Vol. 5, Issue 3 (2008), pp. 357-367; doi:
10.1109/TCBB.2008.27
[R5] Luciano Margara, Marco Vassura, Piero Fariselli, Rita Casadio
A Graph Theoretic Approach to Protein Structure Selection
Artificial Intelligence in Medicine, Vol. 45 (2009), pp. 229-237.
doi:10.1016/j.artmed.2008.07.016.
[R6] Alberto Dennunzio, Pietro Di Lena, Enrico Formenti, Luciano
Margara. On the directional dynamics of additive cellular automata
Theoretical Computer Science. Vol. 410 (2009), pp. 4823-4833.
[R7] Pietro Di Lena, Marco Vassura, Luciano Margara, Piero
Fariselli and Rita Casadio. On the reconstruction of
three-dimensional protein structures from contact maps. Algorithms.
2009; 2(1):76-92
[R8] Pietro Di Lena, Luciano Margara. On the undecidability of the
limit behavior of Cellular Automata. Theoretical Computer Science.
411(7-9): 1075-1084 (2010)
[R9] Pietro di Lena, Piero Fariselli, Luciano Margara, Marco
Vassura, Rita Casadio
Is there an optimal substitution matrix for contact prediction with
correlated mutations? IEEE/ACM Transactions on Computational
Biology and Bioinformatics, To Appear
[R10] Pietro Di Lena, Luciano Margara.
Optimal Global Alignment of Signals by Maximization of Pearson
Correlation.
Information Processing Letters, To Appear.
[R11] Pietro di Lena, Piero Fariselli, Luciano Margara, Marco
Vassura, Rita Casadio
Fast overlapping of protein contact maps by alignment of
eigenvectors.
Bioinformatics, To Appear
R[12] Marco Vassura, Pietro Di Lena, Luciano Margara, Maria Mirto,
Giovanni Aloisio, Piero Fariselli and Rita Casadio.
Blurring contact maps of thousands of proteins: what we can learn
by reconstructing 3D structure
BioData Mining, To Appear
R[13] Pietro Di Lena, Luciano Margara.
On the undecidability of attractor properties for Cellular
Automata
Fundamenta Informaticae, To Appear
Conferences
[C1] Pietro di Lena, Luciano Margara, Computational Complexity of
Dynamical Systems: the case of Cellular Automata International
Conference on Language and Automata Theory and Applications (LATA
2007), Terragona, 2007.
[C2] M. Vassura, L. Margara, P. Fariselli, R. Casadio A Graph
Theoretic Approach to Protein Structure Selection Fourth
International Meeting on Computational Intelligence Methods for
Bioinformatics and Biostatistics (CIBB 07) Portofino 2007. Springer
Verlag Lecture Notes in Artificial Intelligence 4578 pp.
497-504.
[C3] Luciano Margara, Marco Vassura, Pietro di Lena, Filippo Medri,
Piero Fariselli, Rita Casadio Reconstruction of 3D Structures From
Protein Contact Maps International Symposium on Bioinformatics
Research and Applications (ISBRA 2007), Atlanta, 2007. Springer
Verlag Lecture Notes in Bioinformatics 4463, 578-589, May
2007.
[C4] Luciano Margara, Marco Vassura, Pietro di Lena, Filippo Medri,
Piero Fariselli, Rita Casadio Fault Tolerance for Large Scale
Protein 3D Reconstruction from Contact Maps 7th Workshop on
Algorithms in Bioinformatics. Springer Verlag Lecture Notes in
Bioinformatics 4645, 25-37, August 2007.
[C5] Alberto Dennunzio, Pietro Di Lena, Enrico Formenti, Luciano
Margara. Classification of directional dynamics for Additive
Cellular Automata. First Symposium on Cellular Automata, (JAC
2008), April 21-25, 2008, Uzés, France.
[C6] Pietro Di Lena, Luciano Margara, Marco Vassura, Piero
Fariselli, Rita Casadio. A new protein representation based on
fragment contacts: towards an improvement of contact maps
predictions. Proceedings of the fifth international meeting on
Computational Intelligence methods for Bioinformatics and
Biostatistics (CIBB08), 2008. Selected for publication in Springer
Verlag Lecture Notes in Bioinformatics
[C7] Pietro di Lena, Luciano Margara. Undecidable properties of
limit set dynamics of Cellular Automata. Proc. of the 26th
International Symposium on Theoretical Aspects of Computer Science
(STACS 2009).
[C8] Pietro Di Lena, Luciano Margara, Marco Vassura, Piero
Fariselli, Rita Casadio. On the upper bound of the prediction
accuracy of residue contacts in proteins with correlated mutations:
the case study of the similarity matrices Proc. of the 9th
International Workshop on Algorithms in Bioinformatics (WABI2009),
Pennsylvania 2009
Book Chapters
[L1] M. Mirto, I. Epicoco, S. Fiore, M. Cafaro, A. Negro, D.
Tartarini, D. Lezzi, O. Marra, A. Turi, A. Ferramosca, V. Zara, G.
Aloisio, G. Donvito, L. Carota, G. Cuscela, G. P. Maggi, G. La
Rocca, M. Mazzucato, S. My, G. Selvaggi, G. Scioscia, P. Leo, L. Di
Pace, G. Pappada', V. Quinto, M. Berardi, F. Falciano, A. Emerson,
E. Rossi, G. Lavorgna, A. Vanni, Lisa Bartoli, P. Di Lena, P.
Fariselli, R. Fronza, L. Margara, L. Montanucci, P. L. Martelli, I.
Rossi, M. Vassura, R. Casadio, T. Castrignanò, D. D'Elia, G.
Grillo, F. Licciulli, S. Liuni, A. Gisel, M. Santamaria, S.
Vicario, C. Saccone, A. Anselmo, D. Horner, F. Mignone, G. Pavesi,
E. Picardi, V. Piccolo, M. Re, F. Zambelli, G. Pesole. The LIBI
Grid Platform for Bioinformatics, in Mario Cannataro (Ed.),
Handbook of Research on Computational Grid Technologies for Life
Sciences, Biomedicine and Healthcare, IGI Global (In Stampa).
