DOE Human Genome Program Contractor-Grantee Workshop VIII
February 27-March 2, 2000  Santa Fe, NM

145. BioInformatics Prototyping Language for Mapping, Sequence Assembly and Data Analysis

Bud Mishra

Professor of Computer Science and Mathematics (Courant, NYU) Adjunct Professor of Bioinformatics (CSHL) Institutional Affiliation Courant Institute New York University 251 Mercer Street, New York, N.Y.10012

Our research program is aimed at enhancing the current bioinformatics tools within a coherent and unified framework in order to solve and explore several mathematical and computational problems arising in computational genomics. Our initial primary research activity centers around the algorithmic tools necessary to create high-resolution, high-accuracy, sequence-ready, fully-verified reference physical maps based on our earlier Bayesian approach to mapping. The subsequent activities focus upon sequence verification and anchoring tools, map and sequence analysis tools and tools for detecting polymorphisms and chromosomal aberrations. Instead of developing each tool ab initio, the chosen strategy is to embed the building blocks of the interdependent tool set in a high-level programming language that supports a fast robust free-format data base and fast access to powerful program libraries supporting string algorithms, statistical subroutines, map manipulation routines, image processing routines, visualization widgets and database tools.

Department of Energy 2000-2003. 25-74100-F1799.