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Computational Sequence Design with R2oDNA Designer

  • James T. MacDonaldEmail author
  • Velia Siciliano
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1651)

Abstract

Recently developed DNA assembly methods have enabled the rapid and simultaneous assembly of multiple parts to create complex synthetic gene circuits. A number of groups have proposed the use of computationally designed orthogonal spacer sequences to guide the ordered assembly of parts using overlap-directed or homologous recombination-based methods. This approach is particularly useful for assembling multiple parts with repetitive elements. Orthogonal spacer sequences (sometimes called UNSs—unique nucleotide sequences) also have a number of other potential uses including in the design of synthetic promoters regulated by novel regulatory elements.

Key words

Unique nucleotide sequences (UNSs) Spacer sequences Biologically neutral sequences Computational design DNA assembly Orthogonal sequences 

Notes

Acknowledgment

This work was funded by the Engineering and Physical Sciences Research Council, UK (EPSRC, UK), and a Junior Research Fellowship (JRF) from Imperial College London.

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Copyright information

© Springer Science+Business Media LLC 2017

Authors and Affiliations

  1. 1.Centre for Synthetic Biology and InnovationImperial CollegeLondonUK
  2. 2.Department of MedicineImperial CollegeLondonUK

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