@article{Pelizzola1994,
	title = {On three new cluster variation approximations},
	author = {Alessandro Pelizzola},
	day = {15},
	journal = {Physica A: Statistical and Theoretical Physics},
	month = {Oct},
	number = {1},
	pages = {107--123},
	url = {http://www.sciencedirect.com/science/article/B6TVG-46RW0Y1-C/1/ebcda3c5acffd1ef9840092b26dbd5ec},
	volume = {211},
	year = {1994},
	biburl = {http://www.bibsonomy.org/bibtex/27d69bc8b6251ae3f2dd5c8941bb86787/smicha},
	description = {Physica A},
	keywords = {imported }
}

@article{Buzano1999,
	title = {Partial integration and local mean field approach for a vector lattice
	model of microemulsions: unbalanced case},
	author = {C. Buzano and A. Pelizzola and M. Pretti},
	day = {15},
	journal = {Physica A: Statistical and Theoretical Physics},
	month = {Jan},
	number = {3-4},
	pages = {280--293},
	url = {http://www.sciencedirect.com/science/article/B6TVG-3WPXKHS-3/1/3a9abd44c12c8b537dc4779c3ebd81ff},
	volume = {262},
	year = {1999},
	biburl = {http://www.bibsonomy.org/bibtex/2e7cb8e3bd9d47350fafd19f880dce6c7/smicha},
	description = {Physica A},
	keywords = {Amphiphile }
}

@article{Buzano1992,
	title = {Multicritical points and reentrant phenomenon in the BEG model},
	author = {Carla Buzano and Alessandro Pelizzola},
	day = {15},
	journal = {Physica A: Statistical Mechanics and its Applications},
	month = {Oct},
	number = {1-2},
	pages = {333--347},
	url = {http://www.sciencedirect.com/science/article/B6TVG-46DF79R-DB/1/90cad781ccda9761e31f2cae9a4c06b6},
	volume = {189},
	year = {1992},
	biburl = {http://www.bibsonomy.org/bibtex/24d29abbd107ba1ea833d1f2c765e24fd/smicha},
	description = {Physica A},
	keywords = {imported }
}

@article{Buzano1993,
	title = {Surface reentrance in the semi-infinite spin-1 Ising models},
	author = {Carla Buzano and Alessandro Pelizzola},
	day = {15},
	journal = {Physica A: Statistical and Theoretical Physics},
	month = {Apr},
	number = {1-2},
	pages = {197--214},
	url = {http://www.sciencedirect.com/science/article/B6TVG-46X9KCC-59/1/6470481f4f36372d8b7c3270e9d430a1},
	volume = {195},
	year = {1993},
	biburl = {http://www.bibsonomy.org/bibtex/246b04f34b3e03ee2774c4aa673078660/smicha},
	description = {Physica A},
	keywords = {imported }
}

@article{Buzano1995,
	title = {New topologies in the phase diagram of the semi-infinite Blume-Capel
	model},
	author = {Carla Buzano and Alessandro Pelizzola},
	day = {01},
	journal = {Physica A: Statistical and Theoretical Physics},
	month = {Jun},
	number = {1-2},
	pages = {158--168},
	url = {http://www.sciencedirect.com/science/article/B6TVG-41JTC82-F/1/3e1accaeaf8f6aa16bdcf2fbadf4d3f5},
	volume = {216},
	year = {1995},
	biburl = {http://www.bibsonomy.org/bibtex/2dde6737bb1a3805c62f5cdc5e573bbc7/smicha},
	description = {Physica A},
	keywords = {imported }
}

@article{journals/corr/abs-cond-mat-0508216,
	title = {Cluster Variation Method in Statistical Physics and Probabilistic Graphical Models},
	author = {Alessandro Pelizzola},
	journal = {CoRR},
	note = {informal publication},
	url = {http://dblp.uni-trier.de/db/journals/corr/corr0508.html#abs-cond-mat-0508216},
	volume = {abs/cond-mat/0508216},
	year = {2005},
	biburl = {http://www.bibsonomy.org/bibtex/2af3fd69ba9d67a878eb2f6fd8eb1e7c4/dblp},
	description = {dblp},
	ee = {http://arxiv.org/abs/cond-mat/0508216}, date = {2008-01-02},
	keywords = {dblp }
}

@incollection{statphys23_0774,
	title = {Wako-Sait\^{o}-Mu\~{n}oz-Eaton Model and Protein Folding Kinetics},
	address = {Genova, Italy},
	author = {M. Zamparo and A. Pelizzola and A. Imparato},
	booktitle = {Abstract Book of the XXIII IUPAP International Conference on Statistical Physics},
	editor = {Luciano Pietronero and Vittorio Loreto and Stefano Zapperi},
	month = {9-13 July},
	url = {http://st23.statphys23.org/webservices/abstract/preview_pop.php?ID_PAPER=774},
	year = {2007},
	biburl = {http://www.bibsonomy.org/bibtex/2953b74f7ab3779bb3bb21c536602e412/statphys23},
	abstract = {In the last decades we have witnessed a significant advance in protein
folding study and several theoretical models have been proposed with the 
aim to elucidate the relationship between protein folding kinetics and
the structure of the native state (the functional state of the protein).
One of these, introduced in 1978 by Wako and Sait\^{o} and later reconsidered 
by Mu\~{n}oz and Eaton, is based on a lattice statistical mechanical model with
remarkable mathematical properties which make it possible to obtain exact 
results. 

In my poster I am going to discuss the Wako-Sait\^{o}-Mu\~{n}oz-Eaton model of protein folding and its properties. I will illustrate equilibrium ones and then,
using these as a starting point, I will propose a way to treat the kinetic 
problem that allows to reduce the computational complexity to polynomial, 
from exponential in the number of aminoacids of the protein, and makes it 
possible to obtain good semi-analytical approximation of its exact solution.
Some applications of exposed methods will be also considered.},
	keywords = {folding lattice models protein solvable statphys23 topic-10 }
}

@incollection{statphys23_0415,
	title = {Ising-Like Model of Protein Folding: Kinetics, Mutations, Mechanical Unfolding},
	address = {Genova, Italy},
	author = {A. Pelizzola},
	booktitle = {Abstract Book of the XXIII IUPAP International Conference on Statistical Physics},
	editor = {Luciano Pietronero and Vittorio Loreto and Stefano Zapperi},
	month = {9-13 July},
	url = {http://st23.statphys23.org/webservices/abstract/preview_pop.php?ID_PAPER=415},
	year = {2007},
	biburl = {http://www.bibsonomy.org/bibtex/2574410e1eb03a9594258a904a0bdaa7f/statphys23},
	abstract = {We consider a simplified model of protein folding, with binary degrees
of freedom, whose equilibrium thermodynamics is exactly solvable [1,2].

The kinetics is studied by means of computer simulations and a local
equilibrium approach [3,4]. Equilibration rates show good agreement
with the experimental ones for both wild type proteins and their
mutants [5]. The relationship between the logarithm of the
equilibration rate and the absolute contact order is studied for model
structures and is found to be almost perfectly linear within definite
classes [6].

The model is then generalized with the inclusion of an external force,
and the mechanical unfolding and refolding of protein domains and RNA
fragments is studied [7]. Considering both dynamic loading and force
clamp protocols, we verify theoretical expectations for unfolding
forces and times and obtain unfolding lengths which compare very well
with the experimental values. We also show that the generalized
Jarzynski equality is satisfied. Finally, we compute the unfolding and
refolding work distributions for RNA fragments, which show a good
qualitative agreement with experimental results and satisfy Crooks'
theorem.

1) P. Bruscolini and A. Pelizzola, Phys. Rev. Lett. 88, 258101 (2002).\\
2) A. Pelizzola, J. Stat. Mech. P11010 (2005).\\
3) M. Zamparo and A. Pelizzola, Phys. Rev. Lett. 97, 068106 (2006).\\
4) M. Zamparo and A. Pelizzola, J. Stat. Mech. P12009 (2006).\\
5) M. Zamparo and A. Pelizzola, in preparation.\\
6) P. Bruscolini, A. Pelizzola and M. Zamparo, submitted to Phys. Rev. Lett.\\
7) A. Imparato, A. Pelizzola and M. Zamparo, arXiv:cond-mat/0611003,
to appear in Phys. Rev. Lett.},
	keywords = {fluctuations folding ising-like mechanical model nonequilibrium protein rna statphys23 topic-10 unfolding }
}

@article{journals/bmcbi/PavelkaPVCSGR04,
	title = {A power law global error model for the identification of differentially expressed genes in microarray data.},
	author = {Norman Pavelka and Mattia Pelizzola and Caterina Vizzardelli and Monica Capozzoli and Andrea Splendiani and Francesca Granucci and Paola Ricciardi-Castagnoli},
	journal = {BMC Bioinformatics},
	pages = {203},
	url = {http://dblp.uni-trier.de/db/journals/bmcbi/bmcbi5.html#PavelkaPVCSGR04},
	volume = {5},
	year = {2004},
	biburl = {http://www.bibsonomy.org/bibtex/2d748372053fd6b4737352566e18e8220/dblp},
	description = {dblp},
	ee = {http://dx.doi.org/10.1186/1471-2105-5-203}, date = {2006-05-17},
	keywords = {dblp }
}