Andrea Pagnani
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Direct-coupling analysis of residue coevolution captures native contacts across many protein families
F Morcos, A Pagnani, B Lunt, A Bertolino, DS Marks, C Sander, ...
Proceedings of the National Academy of Sciences 108 (49), E1293-E1301, 2011
Protein 3D structure computed from evolutionary sequence variation
DS Marks, LJ Colwell, R Sheridan, TA Hopf, A Pagnani, R Zecchina, ...
PLoS One 6 (12), e28766, 2011
Integrated transcriptional and competitive endogenous RNA networks are cross-regulated in permissive molecular environments
U Ala, FA Karreth, C Bosia, A Pagnani, R Taulli, V Léopold, Y Tay, ...
Proceedings of the National Academy of Sciences 110 (18), 7154-7159, 2013
A critical assessment of Mus musculus gene function prediction using integrated genomic evidence
L Peña-Castillo, M Tasan, CL Myers, H Lee, T Joshi, C Zhang, Y Guan, ...
Genome biology 9 (1), 1-19, 2008
Coloring random graphs
R Mulet, A Pagnani, M Weigt, R Zecchina
Physical review letters 89 (26), 268701, 2002
Genome-wide analysis identifies a functional association of Tet1 and Polycomb repressive complex 2 in mouse embryonic stem cells
F Neri, D Incarnato, A Krepelova, S Rapelli, A Pagnani, R Zecchina, ...
Genome biology 14 (8), R91, 2013
Critical exponents of the KPZ equation via multi-surface coding numerical simulations
E Marinari, A Pagnani, G Parisi
Journal of Physics A: Mathematical and General 33 (46), 8181, 2000
Fast and accurate multivariate Gaussian modeling of protein families: Predicting residue contacts and protein-interaction partners
C Baldassi, M Zamparo, C Feinauer, A Procaccini, R Zecchina, M Weigt, ...
PloS one 9 (3), e92721, 2014
Perturbation biology: inferring signaling networks in cellular systems
EJ Molinelli, A Korkut, W Wang, ML Miller, NP Gauthier, X Jing, P Kaushik, ...
PLoS computational biology 9 (12), e1003290, 2013
Modelling competing endogenous RNA networks
C Bosia, A Pagnani, R Zecchina
PloS one 8 (6), e66609, 2013
Simultaneous reconstruction of multiple signaling pathways via the prize-collecting Steiner forest problem
N Tuncbag, A Braunstein, A Pagnani, SSC Huang, J Chayes, C Borgs, ...
Journal of computational biology 20 (2), 124-136, 2013
Polynomial iterative algorithms for coloring and analyzing random graphs
A Braunstein, R Mulet, A Pagnani, M Weigt, R Zecchina
Physical Review E 68 (3), 036702, 2003
Width distributions and the upper critical dimension of Kardar-Parisi-Zhang interfaces
E Marinari, A Pagnani, G Parisi, Z Rácz
Physical review E 65 (2), 026136, 2002
Simultaneous identification of specifically interacting paralogs and interprotein contacts by direct coupling analysis
T Gueudré, C Baldassi, M Zamparo, M Weigt, A Pagnani
Proceedings of the National Academy of Sciences 113 (43), 12186-12191, 2016
Somatic mutagenesis in satellite cells associates with human skeletal muscle aging
I Franco, A Johansson, K Olsson, P Vrtačnik, P Lundin, HT Helgadottir, ...
Nature communications 9 (1), 1-12, 2018
Improving contact prediction along three dimensions
C Feinauer, MJ Skwark, A Pagnani, E Aurell
PLoS computational biology 10 (10), e1003847, 2014
Glassy transition in a disordered model for the RNA secondary structure
A Pagnani, G Parisi, F Ricci-Tersenghi
Physical review letters 84 (9), 2026, 2000
Scalings of domain wall energies in two dimensional Ising spin glasses
C Amoruso, E Marinari, OC Martin, A Pagnani
Physical review letters 91 (8), 087201, 2003
Threshold values, stability analysis, and high-q asymptotics for the coloring problem on random graphs
F Krząkała, A Pagnani, M Weigt
Physical Review E 70 (4), 046705, 2004
Numerical estimate of the Kardar-Parisi-Zhang universality class in (2+ 1) dimensions
A Pagnani, G Parisi
Physical Review E 92 (1), 010101, 2015
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Articles 1–20