Visual DSD: a design and analysis tool for DNA strand displacement systems.

Matthew R Lakin, Simon Youssef, Filippo Polo, Stephen Emmott, Andrew Phillips

Biological Computation Group, Microsoft Research, Cambridge CB3 0FB, UK.

Bioinformatics (Oxford, England) 2011 Nov 15

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The Visual DSD (DNA Strand Displacement) tool allows rapid prototyping and analysis of computational devices implemented using DNA strand displacement, in a convenient web-based graphical interface. It is an implementation of the DSD programming language and compiler described by Lakin et al. (2011) with additional features such as support for polymers of unbounded length. It also supports stochastic and deterministic simulation, construction of continuous-time Markov chains and various export formats which allow models to be analysed using third-party tools.

Citation

Matthew R Lakin, Simon Youssef, Filippo Polo, Stephen Emmott, Andrew Phillips. Visual DSD: a design and analysis tool for DNA strand displacement systems. Bioinformatics (Oxford, England). 2011 Nov 15;27(22):3211-3