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2017 ; 8
(ä): 14373
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Compiler-aided systematic construction of large-scale DNA strand displacement
circuits using unpurified components
#MMPMID28230154
Thubagere AJ
; Thachuk C
; Berleant J
; Johnson RF
; Ardelean DA
; Cherry KM
; Qian L
Nat Commun
2017[Feb]; 8
(ä): 14373
PMID28230154
show ga
Biochemical circuits made of rationally designed DNA molecules are proofs of
concept for embedding control within complex molecular environments. They hold
promise for transforming the current technologies in chemistry, biology, medicine
and material science by introducing programmable and responsive behaviour to
diverse molecular systems. As the transformative power of a technology depends on
its accessibility, two main challenges are an automated design process and simple
experimental procedures. Here we demonstrate the use of circuit design software,
combined with the use of unpurified strands and simplified experimental
procedures, for creating a complex DNA strand displacement circuit that consists
of 78 distinct species. We develop a systematic procedure for overcoming the
challenges involved in using unpurified DNA strands. We also develop a model that
takes synthesis errors into consideration and semi-quantitatively reproduces the
experimental data. Our methods now enable even novice researchers to successfully
design and construct complex DNA strand displacement circuits.