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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 tool to find microRNAs with high accuracy and no learning at genome scale and from deep sequencing data.

A large-scale method to predict protein interfaces based on sequence sampling.

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

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