Statistical mechanics of base stacking and pairing in DNA melting

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dc.creatorIvanov, Vassili
dc.creatorZeng, Yan
dc.creatorZocchi, Giovanni
dc.date2004-11-22
dc.date.accessioned2026-07-07T03:02:16Z
dc.date.available2026-07-07T03:02:16Z
dc.descriptionWe propose a statistical mechanics model for DNA melting in which base stacking and pairing are explicitly introduced as distinct degrees of freedom. Unlike previous approaches, this model describes thermal denaturation of DNA secondary structure in the whole experimentally accessible temperature range. Base pairing is described through a zipper model, base stacking through an Ising model. We present experimental data on the unstacking transition, obtained exploiting the observation that at moderately low pH this transition is moved down to experimentally accessible temperatures. These measurements confirm that the Ising model approach is indeed a good description of base stacking. On the other hand, comparison with the experiments points to the limitations of the simple zipper model description of base pairing.
dc.description13 pages with figures
dc.identifierhttps://arxiv.org/abs/cond-mat/0411563
dc.identifierhttp://arxiv.org/abs/cond-mat/0411563
dc.identifierPhys. Rev. E 70, 051907 (2004)
dc.identifierdoi:10.1103/PhysRevE.70.051907
dc.identifier.urihttp://salesiana.dossiersoluciones.com/handle/123456789/25336
dc.subjectStatistical Mechanics
dc.subjectBiological Physics
dc.subjectBiomolecules
dc.titleStatistical mechanics of base stacking and pairing in DNA melting
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