Scaffolded and non-scaffolded DNA origami enable the programmed synthesis of complex DNA-based structures at the nanometer-scale with functional properties for a range of scientific and industrial applications [1-6].
Computational feedback is needed to reduce the financial cost and time required to design these structures successfully, which are additionally difficult to assay experimentally due to their nanoscale dimensions. With this free online resource we aim to offer designers of DNA nanostructures computational predictions of the 3D solution shape and flexibility of single- and multi-layer structures to inform and enhance their design process.
Analysis is performed using a finite-element-based modeling framework for DNA with single base-pair resolution, with input provided by design files created using:
- caDNAno  on a honeycomb  or square lattice ,
- Tiamat  without a lattice, or
- the CanDo file format (.cndo) without a lattice.
The utility of CanDo is illustrated on the About page of this website, where several sophisticated non-linear structures including curvature and twist are predicted. Practical information on how to approach the design and production of DNA-based nanostructures can be found in references [9-11].
879 registered users and 13913 total structures solved successfully by 930 unique users since March, 2011.
The Laboratory for Computational Biology & Biophysics is grateful to its sponsors, the Office of Naval Research, the Army Research Office, and the National Science Foundation for financial support to develop and maintain this resource.