A tool for the analysis of the coevolution of amino-acid fragments in proteins, and for the identification of their networks.

Direct Coupling Analysis (DCA) is a statistical inference framework used to infer direct co-evolutionary couplings among residue pairs in  multiple sequence alignments. A recent formulation of DCA termed mean field DCA (mfDCA), provides the computational power to apply this tool in a high throughput manner to a number of protein and domain families. mfDCA was able to uncover a large number of native intra-domain and inter-domain residue-residue contacts in many domain families.

A combinatorial approach to detect coevolved aminoacid networks in protein families of variable divergence.

A study of protein-protein interactions in a crowded environment: an analysis via cross-docking simulations and evolutionary information.<!– wp:paragraph –> <!– /wp:paragraph –>