225 citations
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5 papers · 1 filter
Combining phylogeny and coevolution improves the inference of interaction partners among paralogous proteins
Carlos A. Gandarilla-Perez, Sergio Pinilla, Anne-Florence Bitbol +1
Predicting protein-protein interactions from sequences is an important goal of computational biology. Various sources of information can be used to this end. Starting from the sequ…
Statistical physics of interacting proteins: impact of dataset size and quality assessed in synthetic sequences
Carlos A. Gandarilla-Pérez, Pierre Mergny, Martin Weigt +1
Identifying protein-protein interactions is crucial for a systems-level understanding of the cell. Recently, algorithms based on inverse statistical physics, e.g. Direct Coupling A…
Phylogenetic correlations can suffice to infer protein partners from sequences
Guillaume Marmier, Martin Weigt, Anne-Florence Bitbol
Determining which proteins interact together is crucial to a systems-level understanding of the cell. Recently, algorithms based on Direct Coupling Analysis (DCA) pairwise maximum-…
Revealing evolutionary constraints on proteins through sequence analysis
Shou-Wen Wang, Anne-Florence Bitbol, Ned S. Wingreen
Statistical analysis of alignments of large numbers of protein sequences has revealed "sectors" of collectively coevolving amino acids in several protein families. Here, we show th…
Inferring interaction partners from protein sequences using mutual information
Anne-Florence Bitbol
Functional protein-protein interactions are crucial in most cellular processes. They enable multi-protein complexes to assemble and to remain stable, and they allow signal transduc…