Abstract. A major task in evolutionary biology is to determine the ancestral relationships among the known species, a process generally referred as phylogenetic reconstruction. In ...
Inference of phylogenetic trees comprising hundreds or even thousands of organisms based on the maximum likelihood method is computationally extremely expensive. In previous work,...
The most popular approaches for reconstructing phylogenetic trees attempt to solve NP-hard optimization criteria such as maximum parsimony (MP). Currently, the bestperforming heur...
Background: A widely-used approach for discovering functional and physical interactions among proteins involves phylogenetic profile comparisons (PPCs). Here, proteins with simila...
Background: The rapidly increasing number of completely sequenced genomes led to the establishment of the COG-database which, based on sequence homologies, assigns similar protein...