title: Dynamical model based on finite stacking enthalpies for homogeneous and inhomogeneous DNA thermal denaturation.
abstract: We present a nonlinear dynamical model for DNA thermal denaturation, which is based on the finite stacking enthalpies used in thermodynamical nearest-neighbor calculations. Within this model, the finiteness of stacking enthalpies is shown to be responsible for the sharpness of calculated melting curves. Transfer-integral and molecular dynamics calculations are performed to demonstrate that the proposed model leads to a good agreement with known experimental results for both homogeneous and inhomogeneous DNA.
authors.affiliation: Laboratoire de Spectrométrie Physique (CNRS UMR 5588), Université Joseph Fourier, BP 87, 38402 St Martin d'Hères, France. Marc.JOYEUX@ujf-grenoble.fr
authors.forename: Marc
authors.initials: M
authors.lastname: Joyeux
authors.forename: Sahin
authors.initials: S
authors.lastname: Buyukdagli
mesh_terms: D016880:Anisotropy; D001483:Base Sequence; D003198:Computer Simulation; D004247:DNA / Q000737:chemistry*; D019277:Entropy; D008956:Models, Chemical; D008958:Models, Molecular; D015233:Models, Statistical; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D009691:Nucleic Acid Denaturation; D017422:Sequence Analysis, DNA / Q000379:methods*; D013329:Structure-Activity Relationship; D013696:Temperature; D013816:Thermodynamics
chemical_list: D004247:DNA