Entropic depletion of DNA in triangular nanochannels

Wesley F. Reinhart, Douglas R. Tree, Kevin D. Dorfman

Research output: Contribution to journalArticlepeer-review

20 Scopus citations


Using Monte Carlo simulations of a touching-bead model of double-stranded DNA, we show that DNA extension is enhanced in isosceles triangular nanochannels (relative to a circular nanochannel of the same effective size) due to entropic depletion in the channel corners. The extent of the enhanced extension depends non-monotonically on both the accessible area of the nanochannel and the apex angle of the triangle. We also develop a metric to quantify the extent of entropic depletion, thereby collapsing the extension data for circular, square, and various triangular nanochannels onto a single master curve for channel sizes in the transition between the Odijk and de Gennes regimes.

Original languageEnglish (US)
Article number024102
Issue number2
StatePublished - Apr 5 2013


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