Abstract. With ever increasing amount of available data on protein-protein interaction (PPI) networks and research revealing that these networks evolve at a modular level, discover...
We describe an algorithm, IsoRank, for global alignment of two protein-protein interaction (PPI) networks. IsoRank aims to maximize the overall match between the two networks; in c...
Background: Confidence in pairwise alignments of biological sequences, obtained by various methods such as Blast or Smith-Waterman, is critical for automatic analyses of genomic d...
We present a new knowledge-based Model Quality Assessment Program (MQAP) at the residue level which evaluates single protein structure models. We use a tree representation of the ...
Alberto J. M. Martin, Alessandro Vullo, Gianluca P...
Background: Amino acid sequence probability distributions, or profiles, have been used successfully to predict secondary structure and local structure in proteins. Profile models ...