Current work focuses on the topography of the RNA coding space corresponding to a target protein. The objective is to shed light on the question: Of the exponentially many sequences which could encode a certain protein, why does evolution select a particular one? Also, algorithms to design energetically minimal and maximal RNA sequences which code for a target protein. Designing RNA Structures: Natural and Artificial Selection (with Steve SkiePublicationsna), Recomb 02 (forthcoming).
Optimizing Combinatorial Library Construction via Split Synthesis, (with Steve Skiena), Recomb99.
We model the synthesis of a library of small organic molecules by split synthesis technology as a directed, acyclic graph, and develop two robust and efficient algorithms for reducing the size of the dag while restricting the number of compounds generated. The paper includes extensive data from simulations.
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A presentation in chemist-friendly format of the findings on efficient use of split synthesis to create libraries of organic compounds. Efficient Split Synthesis for Targeted Libraries, Journal of Combinatorial Chemistry; 2000; 2(1); 10-18.