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Scaling theory of DNA confined in nanochannels and nanoslits

Odijk, T. (author)

A scaling analysis is presented of the statistics of long DNA confined in nanochannels and nanoslits. It is argued that there are several regimes in between the de Gennes and Odijk limits introduced long ago. The DNA chain folds back on itself giving rise to a global persistence length that may be very large owing to entropic deflection....

journal article 2008

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Collective diffusion coefficient of proteins with hydrodynamic, electrostatic, and adhesive interactions

Prinsen, P. (author), Odijk, T. (author)

A theory is presented for ?C, the coefficient of the first-order correction in the density of the collective diffusion coefficient, for protein spheres interacting by electrostatic and adhesive forces. An extensive numerical analysis of the Stokesian hydrodynamics of two moving spheres is given so as to gauge the precise impact of lubrication...

journal article 2007

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DNA confined in nanochannels: Hairpin tightening by entropic depletion

Odijk, T. (author)

A theory is presented of the elongation of double-stranded DNA confined in a nanochannel based on a study of the formation of hairpins. A hairpin becomes constrained as it approaches the wall of a channel which leads to an entropic force causing the hairpin to tighten. The DNA in the hairpin remains double-stranded. The free energy of the...

journal article 2006

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Application of the optimized Baxter model to the hard-core attractive Yukawa system

Prinsen, P. (author), Pàmies, J.C. (author), Odijk, T. (author), Frenkel, D. (author)

We perform Monte Carlo simulations on the hard-core attractive Yukawa system to test the optimized Baxter model that was introduced by Prinsen and Odijk [J. Chem. Phys. 121, 6525 (2004) ] to study a fluid phase of spherical particles interacting through a short-range pair potential. We compare the chemical potentials and pressures from the...

journal article 2006

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Fluid-crystal coexistence for proteins and inorganic nanocolloids: Dependence on ionic strength

Prinsen, P. (author), Odijk, T. (author)

We investigate theoretically the fluid-crystal coexistence of solutions of globular charged nanoparticles such as proteins and inorganic colloids. The thermodynamic properties of the fluid phase are computed via the optimized Baxter model P. Prinsen and T. Odijk [J. Chem. Phys. 121, 6525 (2004)]. This is done specifically for lysozyme and...

journal article 2006

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Diffusion of water and sodium counter-ions in nanopores of a β-lactoglobulin crystal: A molecular dynamics study

Malek, K. (author), Odijk, T. (author), Coppens, M.O. (author)

journal article 2005

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Optimized Baxter model of protein solutions: Electrostatics versus adhesion

Prinsen, P. (author), Odijk, T. (author)

A theory is set up of spherical proteins interacting by screened electrostatics and constant adhesion, in which the effective adhesion parameter is optimized by a variational principle for the free energy. An analytical approach to the second virial coefficient is first outlined by balancing the repulsive electrostatics against part of the bare...

journal article 2004

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Spinodal decomposition in a semidilute suspension of rodlike macromolecules

Winters, J.W. (author), Odijk, T. (author), Van der Schoot, P. (author)

journal article 2001

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Depletion theory of protein transport in semidilute polymer solutions

Odijk, T. (author)

journal article 2000

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Electrostatic-undulatory theory of plectonemically supercoiled DNA,

Ubbink, J. (author), Odijk, T. (author)

journal article 1999

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Microfibrillar buckling within fibers under compression

Odijk, T. (author)

journal article 1998

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Many-body depletion interactions among protein spheres in a semidilute polymer solution

Odijk, T. (author)

journal article 1997

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Cahiers voor fysische chemie: 4 Polymeren

Odijk, T. (author), Frens, G. (author)

book 1996

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DNA in a liquid-crystalline environment: Tight bends, rings, supercoils

Odijk, T. (author)

journal article 1996

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Deformation of toroidal DNA condensates under surface stress

Ubbink, J. (author), Odijk, T. (author)

journal article 1996

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Viscosity of wormlike micelles: Determination of the end cap energy and persistence length

Duyndam, A. (author), Odijk, T. (author)

journal article 1996

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Remarks on the hierarchical organization of fibers

Odijk, T. (author)

journal article 1996

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Protein-macromolecule interactions

Odijk, T. (author)

journal article 1996

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Polymer nematic gel under tension, Appendix in "Liquid crystalline epoxide thermosets" S. Jahromi, W.A.G. Kuipers, B. Norder, and W.J. Mijs.

Odijk, T. (author)

journal article 1995

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Stiff chains and filaments under tension

Odijk, T. (author)

journal article 1995