Motivation: Mapping of remote evolutionary links is a classic computational problem of much interest. Relating protein families allows for functional and structural inference on u...
: Phylogenetic profiles of proteins strings of ones and zeros encoding respectively the presence and absence of proteins in a group of genomes have recently been used to id...
Background: Profile-profile methods have been used for some years now to detect and align homologous proteins. The best such methods use information from the background distributi...
Background: PDZ domain is a well-conserved, structural protein domain found in hundreds of signaling proteins that are otherwise unrelated. PDZ domains can bind to the C-terminal ...
Background: An important and yet rather neglected question related to bioinformatics predictions is the estimation of the amount of data that is needed to allow reliable predictio...