Abstract. We give a novel general approach for solving NP-hard optimization problems that combines dynamic programming and fast matrix multiplication. The technique is based on red...
The approximate string matching problem is to find all locations at which a query of length m matches a substring of a text of length n with k-or-fewer differences. Simple and prac...
Multiple sequence alignment is a central problem in Bioinformatics. A known integer programming approach is to apply branch-and-cut to exponentially large graph-theoretic models. T...
Steven David Prestwich, Desmond G. Higgins, Orla O...
The class ACC consists of circuit families with constant depth over unbounded fan-in AND, OR, NOT, and MODm gates, where m > 1 is an arbitrary constant. We prove: • NTIME[2n ...
: In biological sequence analysis, position specific scoring matrices (PSSMs) are widely used to represent sequence motifs. In this paper, we present a new nonheuristic algorithm, ...
Michael Beckstette, Dirk Strothmann, Robert Homann...