Combinatorial Pattern Matching

A faster algorithm for approximate string matching.- Boyer-Moore strategy to efficient approximate string matching.- Randomized efficient algorithms for compressed strings: the finger-print approach.- Filtration with q-samples in approximate string matching.- Computing discoveries in molecular biology.- Approximate dictionary queries.- Approximate multiple string search.- A 2 2/3-approximation algorithm for the shortest superstring problem.- Suffix trees on words.- The suffix tree of a tree and minimizing sequential transducers.- Perfect hashing for strings: Formalization and algorithms.- Spliced alignment: A new approach to gene recognition.- Original Synteny.- Fast sorting by reversal.- A double combinatorial approach to discovering patterns in biological sequences.- Poisson process approximation for repeats in one sequence and its application to sequencing by hybridization.- Improved approximation algorithms for tree alignment.- The asymmetric median tree — A new model for building consensus trees.- Constructing computer virus phylogenies.- Docking of conformationally flexible proteins.- Invariant patterns in crystal lattices: Implications for protein folding algorithms (extended abstract).- Graph traversals, genes, and matroids: An efficient case of the travelling salesman problem.- Alphabet independent and dictionary scaled matching.- Analysis of two-dimensional approximate pattern matching algorithms.- Approximation algorithms for maximum two-dimensional pattern matching.- Efficient parallel algorithms for tree editing problems.- Approximate pattern matching in directed graphs.- Finite-state computability of annotations of strings and trees (extended abstract).