Continuum transport model of Ogston sieving in patterned nanofilter arrays for separation of rod-like biomolecules

Electrophoresis
Zi Rui LiJongyoon Han

Abstract

This article proposes a simple computational transport model of rod-like short dsDNA molecules through a microfabricated nanofilter array. Using a nanochannel consisting of alternate deep wells and shallow slits, it is demonstrated that the complex partitioning of rod-like DNA molecules of different sizes over the nanofilter array can be well described by continuum transport theory with the orientational entropy and anisotropic transport parameters properly quantified. In this model, orientational entropy of the rod-like DNA is calculated from the equilibrium distribution of rigid cylindrical rod near the solid wall. The flux caused by entropic differences is derived from the interaction between the DNA rods and the solid channel wall during rotational diffusion. In addition to its role as an entropic barrier, the confinement of the DNA in the shallow channels also induces large changes in the effective electrophoretic mobility for longer molecules in the presence of EOF. In addition to the partitioning/selectivity of DNA molecules by the nanofilter, this model can also be used to estimate the dispersion of separated peaks. It allows for fast optimization of nanofilter separation devices, without the need of stochastic modeling...Continue Reading

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Citations

Jan 8, 2009·Analytical and Bioanalytical Chemistry·Zi Rui LiNicolas G Hadjiconstantinou
Nov 10, 2009·Nature Nanotechnology·W SparreboomJ C T Eijkel
Aug 15, 2009·Lab on a Chip·G B Salieb-BeugelaarJ C T Eijkel
Apr 2, 2010·Lab on a Chip·M NapoliS Pennathur
Jul 31, 2013·Lab on a Chip·Joel D P ThomasKevin D Dorfman
Feb 25, 2010·Chemical Society Reviews·Stephen L Levy, Harold G Craighead
Jun 17, 2014·Electrophoresis·Sungup ChoiSeung Jong Lee
May 17, 2013·Biochemistry·Earle StellwagenNancy C Stellwagen
Nov 13, 2009·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Zi Rui LiNicolas G Hadjiconstantinou

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