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  • 1
    Electronic Resource
    Electronic Resource
    Fusion pathways of vesicles: A Brownian dynamics simulation (2001)
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 115 (2001), S. 9547-9551 
    Details
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: We studied the fusion dynamics of vesicles using a Brownian dynamics simulation. Amphiphilic molecules spontaneously form vesicles with a bilayer structure. Two vesicles come into contact and form a stalk intermediate, in which a necklike structure only connects the outer monolayers, as predicted by the stalk hypothesis. We have found a new pathway of pore opening from stalks at high temperature: the elliptic stalk bends and contact between the ends of the arc-shaped stalk leads to pore opening. On the other hand, we have clarified that the pore-opening process at low temperature agrees with the modified stalk model: a pore is induced by contact between the inner monolayers inside the stalk. © 2001 American Institute of Physics.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1063/1.1414314
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  • 2
    Electronic Resource
    Electronic Resource
    Folding path in a semiflexible homopolymer chain: A Brownian dynamics simulation (2000)
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 113 (2000), S. 854-862 
    Details
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: We studied the kinetics of the folding transition of a semiflexible homopolymer chain, such as DNA, using a Brownian dynamics simulation. The folding product of a semiflexible chain exhibits a toroidal morphology. We show that semiflexible chains fold through various paths from coiled states to toroidal states stochastically. Some chains fold directly by winding around a ring along a chain. Others fold through rod states, which are kinetically trapped metastable states. Both in toroids and rods, sliding motions are noticeable. Large toroids are generated as the intermediate conformation first, and then they become smaller through the sliding motion. © 2000 American Institute of Physics.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1063/1.481861
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  • 3
    Electronic Resource
    Electronic Resource
    Dynamics of DNA electrophoresis in dilute and entangled polymer solutions (2000)
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 112 (2000), S. 9671-9678 
    Details
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: We studied the electrophoresis of polyelectrolyte chains, such as DNA, in linear polymer solutions using Brownian dynamics simulation with anisotropic friction tensor. We show anisotropic friction is an effective method to describe dynamics of polyelectrolyte chains under an electric field in dilute polymer solution as well as in entangled polymer solution or gel. With a low anisotropy of friction, a chain fluctuates between elongated and compact states with no periodicity under a steady electric field and in field-inversion electrophoresis, its mobility shows an abrupt change at a certain chain length without antiresonance. With a high anisotropy of friction, a chain oscillates periodically and in field-inversion electrophoresis its mobility shows antiresonance. The above results agree well with experiments on DNA electrophoresis. © 2000 American Institute of Physics.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1063/1.481583
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  • 4
    Electronic Resource
    Electronic Resource
    Dynamics of DNA in entangled polymer solutions: An anisotropic friction model (2001)
    College Park, Md. : American Institute of Physics (AIP)
    The Journal of Chemical Physics 114 (2001), S. 7260-7266 
    Details
    ISSN: 1089-7690
    Source: AIP Digital Archive
    Topics: Physics , Chemistry and Pharmacology
    Notes: We studied the electrophoretic behavior of DNA chains in linear-polymer solutions using Brownian dynamics with an anisotropic friction model in a three-dimensional space and projected on the x axis. For the three-dimensional model with a chain segment equal to 1/8 of the Kuhn length, a chain migrates with U-shaped conformation with low anisotropy of friction. With high anisotropy of friction, a chain always migrates with linear-shaped conformation with high segment-density regions, which remain at the same positions in space. This migration mode agrees with the observation of DNA in highly entangled solutions [Ueda et al., Biophys. Chem. 71, 113 (1998)]. The projection model also reproduces the linear-shaped motion. We clarified that the essential conditions for linear shaped motion are the sufficient chain length of DNA, the small mesh size, and strong confinement by entanglement with solvent polymers. © 2001 American Institute of Physics.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1063/1.1359481
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