Download: [Link to PDF]

Towards an Optimal DNA-Templated Molecular Assembler

Jakob L Andersen, Christoph Flamm, Martin M Hanczyc, Daniel Merkle

submitted to:

In DNA-templated synthesis, reactants are attached to DNA strands and complementary DNA strands are used to control the reaction towards a goal compound. This very general, simple, and still efficient approach has proven to be successful for the design of complex one-pot synthesis for a large variety of compounds. For a given goal compound many different synthesis plans may exist, and all of them can potentially be implemented with many different DNA-templated programs. This raises the issue of how to automatically infer optimal low-level programs based on a high level synthesis plan or a goal compound only. In this paper we will introduce a computational approach for DNA-templated synthesis based on graph rewriting approaches and the systematic exploration of chemical spaces. We will use them for verification of correctness of real-world synthesis plans as well as to illustrate the non-triviality of finding an optimal DNA assembler program.

Link to publication:

Return to Index Return to List
Last modified: 2008-10-22 12:23:11 fall