Title :
A run-time reconfigurable system for gene-sequence searching
Author :
Puttegowda, Kiran ; Worek, William ; Pappas, Nicholas ; Dandapani, Anusha ; Athanas, Peter ; Dickerman, Allan
Author_Institution :
Virginia Polytech. Inst. & State Univ., Blacksburg, VA, USA
Abstract :
Advances in the field of bio-technology has led to an ever increasing demand for computational resources to rapidly search large databases of genetic information. Databases with billions of data elements are routinely compared and searched for matching and near-matching patterns. We present a system developed to search DNA sequence data using run-time reconfiguration of field programmable gate arrays (FPGAs). The system provides an order of magnitude increase in performance while reducing hardware complexity when compared to existing commercial systems.
Keywords :
DNA; biological techniques; biotechnology; field programmable gate arrays; genetics; information resources; molecular biophysics; DNA sequence data; bio-technology; computational resources; data elements; databases; field programmable gate arrays; gene-sequence searching; genetic information; hardware complexity; near-matching patterns; run-time reconfigurable system; run-time reconfiguration; Bioinformatics; Costs; DNA; Databases; Field programmable gate arrays; Genetics; Hardware; Proteins; Runtime; Sequences;
Conference_Titel :
VLSI Design, 2003. Proceedings. 16th International Conference on
Print_ISBN :
0-7695-1868-0
DOI :
10.1109/ICVD.2003.1183193
