Simulating networks of DNA nanomotifs

This record contains:

-Scripts to parameterise bead-spring models of DNA nanomotifs using Bayesian optimisation

-Scripts to run simulations using oxDNA or ReaDDy

-Scripts to evaluate nanomotif structure, networking and rheological properties

-oxDNA trajectories of single and paired DNA nanomotifs, obtained with umbrella sampling and MD simulations

-ReaDDy trajectories of single, pairs and large networks of nanomotifs obtained with MD simulations

-Version 2 includes treatment of Rouse and Zimm models and includes 3-armed nanomotifs

Generation and analysis of the data was supported by the Helmholtz Association program Natural, Artificial and Cognitive Information Processing, the Helmholtz Initiative and Networking Fund on the HAICORE@KIT partition and by funding from the Carl-Zeiss-Stiftung via the Center SynGen.