This article discusses the nucleic acid sequence design program created to build DNA circuits, CircDesigNA.
CircDesigNA is available for download from this website.
Tutorials are available at this website
What it does
Starting with a specification of a DNA nanodevice, i.e. something like this, CircDesigNA attempts to assign DNA sequence to the parts of the device in a way that satisfies the user's design constraints and minimizes undesired sequence interactions.