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The MATCHIT Automaton: Exploiting Compartmentalization for the Synthesis of Branched Polymers

Lookup NU author(s): Dr Harold Fellermann


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We propose an automaton, a theoretical framework that demonstrates how to improve the yield of the synthesis of branched chemical polymer reactions. This is achieved by separating substeps of the path of synthesis into compartments. We use chemical containers (chemtainers) to carry the substances through a sequence of fixed successive compartments. We describe the automaton in mathematical terms and show how it can be configured automatically in order to synthesize a given branched polymer target. The algorithm we present finds an optimal path of synthesis in linear time. We discuss how the automaton models compartmentalized structures found in cells, such as the endoplasmic reticulum and the Golgi apparatus, and we show how this compartmentalization can be exploited for the synthesis of branched polymers such as oligosaccharides. Lastly, we show examples of artificial branched polymers and discuss how the automaton can be configured to synthesize them with maximal yield.

Publication metadata

Author(s): Weyland M, Fellermann H, Hadorn M, Sorek D, Lancet D, Rasmussen S, Füchslin RM

Publication type: Article

Publication status: Published

Journal: Computational and Mathematical Methods in Medicine

Year: 2013

Volume: 2013

Online publication date: 08/12/2013

Acceptance date: 08/12/2013

Publisher: Hindawi Publishing Corporation


DOI: 10.1155/2013/467428


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