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2000
Marinari E, Pagnani A, Parisi G. Critical exponents of the KPZ equation via multi-surface coding numerical simulations. Journal of Physics A: Mathematical and General. 2000;33:8181.
Pagnani A, Parisi G, Ricci-Tersenghi F. Glassy transition in a disordered model for the RNA secondary structure. Physical Review Letters. 2000;84:2026-9.
Marinari E, Martin-Mayor V, Pagnani A. Spin-glass ordering in diluted magnetic semiconductors: A Monte Carlo study. Physical Review B. 2000;62:4999-5002.
2001
Mulet R, Pagnani A, Parisi G. Against temperature chaos in naive Thouless-Anderson-Palmer equations. Physical Review B. 2001;63:184438.
Pagnani A, Parisi G, Ricci-Tersenghi F. Reply to Comment on "Glassy Transition in a Disordered Model for the RNA Secondary Structure". Physical Review Letters. 2001;86:1382.
2002
Mulet R, Pagnani A, Weigt M, Zecchina R. Coloring Random Graphs. Physical Review Letters. 2002;89:268701.
Marinari E, Pagnani A, Parisi G, Racz Z. Width distributions and the upper critical dimension of Kardar-Parisi-Zhang interfaces. Physical Review E. 2002;65:26136.
Marinari E, Pagnani A, Ricci-Tersenghi F. Zero-temperature properties of RNA secondary structures. Physical Review E. 2002;65:41919.
2003
Pagnani A, Parisi G, Ratieville M. Metastable configurations on the Bethe lattice. Physical Review E. 2003;67:26116.
Pagnani A, Parisi G, Ratieville M. Near-optimal configurations in mean-field disordered systems. Physical Review E. 2003;68:46706.
Braunstein A, Mulet R, Pagnani A, Weigt M, Zecchina R. Polynomial iterative algorithms for coloring and analyzing random graphs. Physical Review E. 2003;68:36702.
Amoruso C, Marinari E, Martin OC, Pagnani A. Scalings of domain wall energies in two dimensional Ising spin glasses. Physical review letters. 2003;91:87201.
2004
Krząkała F, Pagnani A, Weigt M. Threshold values, stability analysis, and high-q asymptotics for the coloring problem on random graphs. Physical Review E. 2004;70:46705.
2005
Leone M, Pagnani A. Predicting protein functions with message passing algorithms. Bioinformatics. 2005;21:239.
2006
Correale L, Leone M, Pagnani A, Weigt M, Zecchina R. The computational core and fixed point organization in Boolean networks. Journal of Statistical Mechanics: Theory and Experiment. 2006;3:P03002.
Correale L, Leone M, Pagnani A, Weigt M, Zecchina R. Core Percolation and Onset of Complexity in Boolean Networks. Physical Review Letters. 2006;96:18101.
Leone M, Pagnani A, Parisi G, Zagordi O. Finite size corrections to random Boolean networks. Journal of Statistical Mechanics: Theory and Experiment. 2006;2006:P12012.
2007
Mahmoudi H, Pagnani A, Weigt M, Zecchina R. Propagation of external regulation and asynchronous dynamics in random Boolean networks. Chaos: An Interdisciplinary Journal of Nonlinear Science. 2007;17:026109.
2008
Peña-Castillo L, Tasan M, Myers CL, Lee H, Joshi T, Zhang C, et al. A critical assessment of Mus musculus gene function prediction using integrated genomic evidence. Genome biology. 2008;9:S2.
Braunstein A, Mulet R, Pagnani A. Estimating the size of the solution space of metabolic networks. BMC Bioinformatics. 2008;9:240. Abstract
Braunstein A, Pagnani A, Weigt M, Zecchina R. Gene-network inference by message passing. In: Journal of Physics: Conference Series. Vol 95. IOP Publishing; 2008. 012016.
Braunstein A, Pagnani A, Weigt M, Zecchina R. Inference algorithms for gene networks: a statistical mechanics analysis. Journal of Statistical Mechanics: Theory and Experiment. 2008;2008:P12001 (29pp). Abstract
Braunstein A, Mulet R, Pagnani A. The space of feasible solutions in metabolic networks. In: Journal of Physics: Conference Series. Vol 95. IOP Publishing; 2008. 012017.
2009
Pagnani A, Tria F, Weigt M. Classification and sparse-signature extraction from gene-expression data. Journal of Statistical Mechanics: Theory and Experiment. 2009;2009:P05001.
Lage-Castellanos A, Pagnani A, Weigt M. Statistical mechanics of sparse generalization and graphical model selection. Journal of Statistical Mechanics: Theory and Experiment. 2009;2009:P10009.