Consultancy work: Statistical mechanics of disordered systems, inference, biological networks, co-evolution, metabolic modeling, maximum likelihood inference, microRNA regulation.
Outreach: Inference of protein-protein interactions from multiple sequence alignment data, modeling of microRNA-target statistical interactions.
Key publications:
Marks DS, Colwell LJ, Sheridan R, Hopf TA, Pagnani A, Zecchina R., Sander C. (2011) Protein 3D Structure Computed from Evolutionary Sequence Variation. PLoS ONE 6(12): e28766. doi:10.1371/journal.pone.0028766
Faruck Morcos, Andrea Pagnani, Bryan Lunt, Arianna Bertolino,Debora S. Marks, Chris Sander, Riccardo Zecchina, José N. Onuchic, Terence Hwa, and Martin Weigt Direct-coupling analysis of residue coevolution captures native contacts across many protein families, PNAS 2011 ; published ahead of print November 21, 2011,doi:10.1073/pnas.111147110.
M. Bailly-Bechet, A. Braunstein, A. Pagnani, M. Weigt, R. Zecchina, Inference of sparse combinatorial-control networks from gene-expression data: a message passing approach, BMC Bioinformatics, 2010, 11:355.
Francesca Tria, Emanuele Caglioti, Vittorio Loreto, Andrea Pagnani, A stochastic local search algorithm for distance-based phylogeny reconstruction, Mol Biol Evol (2010), doi: 10.1093/molbev/msq154.
netadis.wordpress.com 