With the advent of XML we have seen a renewed interest in methods for computing the difference between trees. Methods that include heuristic elements play an important role in pr...
Tancred Lindholm, Jaakko Kangasharju, Sasu Tarkoma
Background: During the past decades, research and development in drug discovery have attracted much attention and efforts. However, only 324 drug targets are known for clinical dr...
Background: Protein structure alignments are usually based on very different techniques to sequence alignments. We propose a method which treats sequence, structure and even combi...
Background: The aim of protein design is to predict amino-acid sequences compatible with a given target structure. Traditionally envisioned as a purely thermodynamic question, thi...
We describe algorithms for pattern matching and pattern learning in TOPS diagrams (formal descriptions of protein topologies). These problems can be reduced to checking for subgrap...