ROSE John A.    Department   Ritsumeikan Asia Pacific University  College of Asia Pacific Studies    Position   Professor
Language	English
Publication Date	2016/04
Type	Research paper (Other)
Peer Review	Peer reviewed
Title	Analysis and Design of a Single-Molecule DNA Nanodevice for Thermal Band-Pass Filters
Contribution Type	First author
Journal	The 11th Annual IEEE International Conference on Nano/Micro Engineered and Molecular Systems (IEEE-NEMS 2016; Proceedings)
Volume, Issue, Page	pp.78-89
Author and coauthor	John A. Rose and Ken Komiya
Details	In previous work, we proposed, theoretically modeled, and experimentally validated a T-dependent ssDNA nanodevice as a potential platform for implementing a thermal band-pass filter. In particular, due to its hill-shaped efficiency curve, which differs from the sigmoidal melting curves of isolated DNA hairpins, this device could be used to regulate the behaviors of other chemical reactions and molecular machines, and thus represents a promising advance in biotechnology. While our preliminary study established the basic feasibility of device tuning,nthe details of the interdependencies of the peak temperature, width, and maximum value of the efficiency curve on the energetic stabilities of the device components remained unclear. In this manuscript, an exact closed-form equation for the device peak temperature is derived and validated, and its scaling behavior is exploited to construct an efficient, effective algorithm for tailored device design. This algorithm is then applied to generate a filter with characteristics which closely match target values, with detailed simulations of device thermal behavior at each design step. Finally, a discussion is undertaken regarding practical issues, the need for further refinement, and the potential for application of the system model to folding error estimation. Note: Selected as one of 4 finalists for the 2016 IEEE-NEMS Best Paper Award.
DOI	10.1109/NEMS.2016.7758205