DNA-templated synthesis optimization

Bjarke N. Hansen, Kim S. Larsen, Daniel Merkle*, Alexei Mihalchuk

*Kontaktforfatter for dette arbejde

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

78 Downloads (Pure)

Abstrakt

In chemistry, synthesis is the process in which a target compound is produced in a step-wise manner from given base compounds. A recent, promising approach for carrying out these reactions is DNA-templated synthesis, since, as opposed to more traditional methods, this approach leads to a much higher effective molarity and makes much desired (sequential) one-pot synthesis possible. With this method, compounds are tagged with DNA sequences and reactions can be controlled by bringing two compounds together via their tags. This leads to new cost optimization problems of minimizing the number of different tags or strands to be used under various conditions. We identify relevant optimization criteria, provide the first computational approach to automatically inferring DNA-templated programs, and obtain efficient optimal and near-optimal results, and also provide a brute-force integer linear programming approach for complete solutions to smaller instances.

OriginalsprogEngelsk
TidsskriftNatural Computing
Vol/bind17
Udgave nummer4
Sider (fra-til)693-707
ISSN1567-7818
DOI
StatusUdgivet - 2018

    Fingerprint

Citationsformater