A slightly different take on bioinformatics <g> -
Nature Biotechnology November 2001 Volume 19 Number 11 pp 1053 - 1059
A DNA computing readout operation based on structure-specific cleavage
Liman Wang1, Jeff G. Hall2, Manchun Lu1, Qinghua Liu1 & Lloyd M. Smith1, 2
1. Department of Chemistry, University of Wisconsin–Madison, 1101 University Avenue, Madison, WI 53706.
2. Third Wave Technologies, 502 South Rosa Road, Madison, WI 53719.
Correspondence should be addressed to L M Smith. e-mail: smith@chem.wisc.edu
We describe a structure-specific cleavage–based READOUT strategy for surface-based DNA computing. The strategy was demonstrated in the solution of a 4-variable/3-satisfiability (SAT) problem. The READOUT step identifies the DNA molecules present at the end of the computational process. The specificity of the sequence detection used here derives from the sequence specificity of DNA hybridization coupled with the structure specificity of the enzymatic cleavage. The process is linear, yielding a higher uniformity of detection of the DNA computing products compared to that obtained with PCR amplification. The structure-specific cleavage–based readout is simple, accurate, and compatible with multiple-word DNA computing.
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