Generalized Poland-Scheraga denaturation model and two-dimensional renewal processes

DOI10.1016/J.SPA.2016.06.017zbMATH Open1354.60118arXiv1510.07996OpenAlexW2963897255MaRDI QIDQ730349FDOQ730349

Giambattista Giacomin, Maha Khatib

Publication date: 27 December 2016

Published in: Stochastic Processes and their Applications (Search for Journal in Brave)

Abstract: The Poland-Scheraga model describes the denaturation transition of two complementary - in particular, equally long - strands of DNA, and it has enjoyed a remarkable success both for quantitative modeling purposes and at a more theoretical level. The solvable character of the homogeneous version of the model is one of features to which its success is due. In the bio-physical literature a generalization of the model, allowing different length and non complementarity of the strands, has been considered and the solvable character extends to this substantial generalization. We present a mathematical analysis of the homogeneous generalized Poland-Scheraga model. Our approach is based on the fact that such a model is a homogeneous pinning model based on a bivariate renewal process, much like the basic Poland-Scheraga model is a pinning model based on a univariate, i.e. standard, renewal. We present a complete analysis of the free energy singularities, which include the localization-delocalization critical point and (in general) other critical points that have been only partially captured in the physical literature. We obtain also precise estimates on the path properties of the model.

Full work available at URL: https://arxiv.org/abs/1510.07996

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zbMATH Keywords

large deviationscritical behaviorpath propertiesDNA denaturationpolymer pinning modeltwo-dimensional renewal processes

Mathematics Subject Classification ID

Large deviations (60F10) Protein sequences, DNA sequences (92D20) Interacting random processes; statistical mechanics type models; percolation theory (60K35) Statistical mechanics of polymers (82D60) Biophysics (92C05) Renewal theory (60K05)

Cites Work

• Title not available (Why is that?)
• Walks, walls, wetting, and melting
• Title not available (Why is that?)
• Random polymers.
• Title not available (Why is that?)
• The second rate function and the asymptotic problems of renewal and hitting the boundary for multidimensional random walks
• A variational formula for the free energy of the partially directed polymer collapse
• Renewal convergence rates and correlation decay for homogeneous pinning models
• Disorder and critical phenomena through basic probability models. École d'Été de Probabilités de Saint-Flour XL -- 2010.
• The localized phase of disordered copolymers with adsorption
• Integro-local limit theorems including large deviations for sums of random vectors. II
• Poland-Scheraga models and the DNA denaturation transition
• On the critical curves of the pinning and copolymer models in correlated Gaussian environment
• On large deviations of sums of independent random vectors on the boundary and outside of the Cramér zone. I.
• An Analogue of the Renewal Theorem in Higher Dimensions
• Sharp asymptotic behavior for wetting models in \((1+1)\)-dimension

Cited In (9)

• Localization, big-jump regime and the effect of disorder for a class of generalized pinning models
• Strong renewal theorems and local large deviations for multivariate random walks and renewals
• Poland-Scheraga models and the DNA denaturation transition
• Scaling limit of the disordered generalized Poland-Scheraga model for DNA denaturation
• Influence of disorder on DNA denaturation: the disordered generalized Poland-Scheraga model
• Disorder and denaturation transition in the generalized Poland-Scheraga model
• DNA melting structures in the generalized Poland-Scheraga model
• Polarobreathers in a generalized Holstein model
• Title not available (Why is that?)

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