STTR Phase I: Network Offloading for Genome Sequence Searching using the SmartNIC

Award Information
Agency: National Science Foundation
Branch: N/A
Contract: 0741004
Agency Tracking Number: 0741004
Amount: $149,950.00
Phase: Phase I
Program: STTR
Awards Year: 2008
Solicitation Year: N/A
Solicitation Topic Code: IT
Solicitation Number: NSF 07-551
Small Business Information
RNET Technologies, Inc.
240 W ELMWOOD DR STE 2010, Dayton, OH, 45459
DUNS: 141943030
HUBZone Owned: N
Woman Owned: N
Socially and Economically Disadvantaged: N
Principal Investigator
 Gerald Sabin
 PhD
 (937) 433-2886
 gsabin@rnet-tech.com
Business Contact
 Gerald Sabin
Title: PhD
Phone: (937) 433-2886
Email: gsabin@rnet-tech.com
Research Institution
 Virginia Polytechnic Institute and State University
 Linda Bucy
 1880 Pratt Drive
Suite 2006
Blackburg, VA, 20406
 (540) 344-9205
 Nonprofit college or university
Abstract
This Small Business Technology Transfer (STTR) Phase I research project aims to develop a Field Programmable Gate Array (FPGA) based co-processing unit that will enable more rapid searches of protein and nucleic acid data by allowing, among other functions, one core of a multicore system to be used as a co-processing unit for data management. Enabling faster comparison and analysis of sequences is essential to the more efficient alignment and identification of molecules such as proteins and nucleic acids whose numbers have grown tremendously over the last two decades and continue to increase. The efficient mining of various databases with tools that allow rapid regional and global alignments is an important part of bioinformatics. With the increasing complexity of the volume of protein and nucleic acid sequence data, it is imperative that hardware and software tools be developed that would allow fast searches of these growing databases. Production of a Field Programmable Gate Array based co-processing unit would enable such a computational acceleration and would improve the currently obtained speeds by a considerable margin. As such, the effects of the technology are likely to be significant.

* information listed above is at the time of submission.

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