A coarse-grained model captures the temporal evolution of DNA nanotube length distributions
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We derive a coarse-grained model that captures the temporal evolution of DNA nanotube length distribution during growth experiments. The model takes into account nucleation, polymerization, joining, and fragmentation processes in the nanotube population. The continuous length distribution is segmented, and the time evolution of the nanotube concentration in each length bin is modeled using ordinary differential equations. The binning choice determines the level of coarse graining. This model can handle time varying concentration of tiles, and we foresee that it will be useful to model dynamic behaviors in other types of biomolecular polymers.
KeywordsDNA nanotubes Ordinary differential equations Growth Dynamic DNA nanotechnology
The authors thank Deborah K. Fygenson, Bernard Yurke, Rebecca Schulman, and Martha Grover for advice and discussions. This research was entirely supported by DE Grant SC0010595.
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