Publications [#290780] of John H. Reif

Conference articles PUBLISHED

1. Reif, JH; LaBean, TH; Pirrung, M; Rana, VS; Guo, B; Kingsford, C; Wickham, GS, Experimental construction of very large scale DNA databases with associative search capability, Lecture Notes in Computer Science Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics, vol. 2340 (January, 2002), pp. 231-247, ISSN 0302-9743, ISBN 3540437754 [pdf], [doi]
   (last updated on 2026/01/15)

   Abstract:
   We describe on-going experiments for executing associative search queries within synthesized DNA databases. Queries are executed by hybridization of a target database strand with a complementary query strand probe. In our initial annealing experiments for processing associative search queries, we employed fluorescently labeled query strands and performed separation of fluorescent versus non-fluorescent beads using Fluorescence Activated Cell Sorting (FACS or flow cytometry). We also tested polymerase chain reaction (PCR) as an output method, and developed a PCR technique for search in the pair-wise constructed library that exploits the particular properties of words in that library. We have also implemented computer software that provides a simulation (viewable on the internet) of the experimental search procedures, as well as a simulation of input/output from conventional 2D images.