title: Polymer translocation in solid-state nanopores: dependence of scaling behavior on pore dimensions and applied voltage.
abstract: We investigate unforced and forced translocation of a Rouse polymer (in the absence of hydrodynamic interactions) through a silicon nitride nanopore by three-dimensional Langevin dynamics simulations, as a function of pore dimensions and applied voltage. Our nanopore model consists of an atomistically detailed nanopore constructed using the crystal structure of β-Si(3)N(4). We also use realistic parameters in our simulation models rather than traditional dimensionless quantities. When the polymer length is much larger than the pore length, we find the translocation time versus chain length scales as τ ∼ N(2+ν) for the unforced case and as τ ∼ N((1+2ν)/(1+ν)) for the forced case. Our results agree with theoretical predictions which indicate that memory effects and tension on the polymer chain play an important role during the translocation process. We also find that the scaling exponents are highly dependent on the applied voltage (force). When the length of the polymer is on the order of the length of the pore, we do not find a continuous scaling law, but rather scaling exponents that increase as the length of the polymer increases. Finally, we investigate the scaling behavior of translocation time versus applied voltage for different polymer and pore lengths. For long pores, we obtain the theoretical scaling law of τ ∼ 1/V(α), where α ≅ 1 for all voltages and polymer lengths. For short pores, we find that α decreases for very large voltages and/or small polymer lengths, indicating that the value of α = 1 is not universal. The results of our simulations are discussed in the context of experimental measurements made under different conditions and with differing pore geometries.
authors.affiliation: Interdisciplinary Bioengineering Graduate Program, Georgia Institute of Technology, Atlanta, Georgia 30332, USA.
authors.forename: Christopher M
authors.initials: CM
authors.lastname: Edmonds
authors.forename: Yeny C
authors.initials: YC
authors.lastname: Hudiono
authors.forename: Amir G
authors.initials: AG
authors.lastname: Ahmadi
authors.forename: Peter J
authors.initials: PJ
authors.lastname: Hesketh
authors.forename: Sankar
authors.initials: S
authors.lastname: Nair
mesh_terms: D003198:Computer Simulation; D004247:DNA / Q000737:chemistry; D004058:Diffusion; D004560:Electricity; D008956:Models, Chemical; D008958:Models, Molecular; D009038:Motion; D058608:Nanopores / Q000648:ultrastructure*; D011108:Polymers / Q000737:chemistry*; D017655:Silicon Compounds / Q000737:chemistry*
chemical_list: D011108:Polymers; D017655:Silicon Compounds; D004247:DNA; C032734:silicon nitride