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Flexibility of short DNA helices under mechanical stretching
Marco Zoli
The flexibility of short DNA fragments is studied by a Hamiltonian model which treats the inter-strand and intra-strand forces at the level of the base pair. The elastic response o…
Twist versus Nonlinear Stacking in Short DNA Molecules
Marco Zoli
The denaturation of the double helix is a template for fundamental biological functions such as replication and transcription involving the formation of local fluctuational opening…
Helix untwisting and bubble formation in circular DNA
Marco Zoli
The base pair fluctuations and helix untwisting are examined for a circular molecule. A realistic mesoscopic model including twisting degrees of freedom and bending of the molecula…
Thermodynamics of Twisted DNA with Solvent Interaction
Marco Zoli
The imaginary time path integral formalism is applied to a nonlinear Hamiltonian for a short fragment of heterogeneous DNA with a stabilizing solvent interaction term. Torsional ef…