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Bio-CAD Tools for DNA Computing

Award Information
Agency: Department of Defense
Branch: Air Force
Contract: FA8750-04-C-0119
Agency Tracking Number: F041-124-2954
Amount: $99,963.00
Phase: Phase I
Program: SBIR
Solicitation Topic Code: AF04-124
Solicitation Number: 2004.1
Timeline
Solicitation Year: 2004
Award Year: 2004
Award Start Date (Proposal Award Date): 2004-04-27
Award End Date (Contract End Date): 2005-01-27
Small Business Information
215 Wynn Dr., 5th Floor
Huntsville, AL 35805
United States
DUNS: 185169620
HUBZone Owned: No
Woman Owned: No
Socially and Economically Disadvantaged: No
Principal Investigator
 Zbigniew Sikorski
 Senior Engineer
 (256) 726-4800
 jls@cfdrc.com
Business Contact
 Ashok Singhal
Title: President & CEO
Phone: (256) 726-4800
Email: aks@cfdrc.com
Research Institution
N/A
Abstract

Emerging interdisciplinary field of biomolecular computing explores new paradigms to perform calculations using molecules. Simulation/design tools are required for development of the molecular computing algorithms and its biophysical bio/nanotechnology implementation. In Phase I, CFDRC together with Prof. A. Macula will develop the Bio-CAD tools for this innovative field, starting from our commercial ACE+ software already successfully used for biotechnology problems. The ACE+ software has incorporated coupled multiphysics solvers and CAD capabilities including excellent geometry creation, visualization and GUI tools. New developments will include multiphysics model of hybrid bio-electronic DNA-silicon interface, model-based extraction of time constants for molecular computing processes: DNA transport, mixing, immobilization, hybridization, washout, PCR, new powerful method of DNA library generation, spatio-temporal model of dielectric properties of multicomponent DNA solution (for dielectric spectroscopy untagged electronic readout), physical model of ultrafast DNA hybridization using short (high-frequency) electric pulse. We will demonstrate the tools on the data mining problem of identification of maximal frequent sets and simulation of simple computing operations using nanoslot DNA-silicon interface. In Phase II, CFDRC with UC Berkeley will perform experimental demonstration of simple operations involved in DNA computing in DNA-silicon chip. CFDRC and Prof. A. Macula will develop compact models for system-level simulations.

* Information listed above is at the time of submission. *

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