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Dell'Erba, M.G.; Zemba, G.R. "Thermodynamics of a model for RNA folding" (2009) Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. 79(1)
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Abstract:

We analyze the thermodynamic properties of a simplified model for folded RNA molecules recently studied by Vernizzi, Orland, and Zee [Phys. Rev. Lett. 94, 168103 (2005)]. The model consists of a chain of one-flavor base molecules with a flexible backbone and all possible pairing interactions equally allowed. The spatial pseudoknot structure of the model can be efficiently studied by introducing a N×N Hermitian random matrix model at each chain site, and associating Feynman diagrams of these models to spatial configurations of the molecules. We obtain an exact expression for the topological expansion of the partition function of the system. We calculate exact and asymptotic expressions for the free energy, specific heat, entanglement, and chemical potential and study their behavior as a function of temperature. Our results are consistent with the interpretation of 1/N as being a measure of the concentration of Mg2+ in solution. © 2009 The American Physical Society.

Registro:

Documento: Artículo
Título:Thermodynamics of a model for RNA folding
Autor:Dell'Erba, M.G.; Zemba, G.R.
Filiación:Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad Nacional de Mar del Plata, Funes 3350, 7600 Mar del Plata, Argentina
Facultad de Ciencias Fisicomatemáticas e Ingeniería, Pontificia Universidad Católica Argentina, Avenida A. Moreau de Justo 1500, Buenos Aires, Argentina
Departamento de Fisica, CNEA, Avenida Libertador 8250, 1429 Buenos Aires, Argentina
CONICET, Argentina
Idioma: Inglés
Palabras clave:Nucleic acids; Probability density function; RNA; Thermodynamic properties; Thermodynamics; Asymptotic expressions; Concentration of; Feynman diagrams; Hermitian; Pairing interactions; Partition functions; Pseudoknot; Random matrix models; RNA folding; Rna molecules; Simplified models; Spatial configurations; Topological expansions; Molecules
Año:2009
Volumen:79
Número:1
Número de artículo:011913
DOI: http://dx.doi.org/10.1103/PhysRevE.79.011913
Título revista:Physical Review E - Statistical, Nonlinear, and Soft Matter Physics
Título revista abreviado:Phys. Rev. E Stat. Nonlinear Soft Matter Phys.
ISSN:15393755
CODEN:PLEEE
Registro:https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_15393755_v79_n1_p_DellErba

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Citas:

---------- APA ----------
Dell'Erba, M.G. & Zemba, G.R. (2009) . Thermodynamics of a model for RNA folding. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, 79(1).
http://dx.doi.org/10.1103/PhysRevE.79.011913
---------- CHICAGO ----------
Dell'Erba, M.G., Zemba, G.R. "Thermodynamics of a model for RNA folding" . Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 79, no. 1 (2009).
http://dx.doi.org/10.1103/PhysRevE.79.011913
---------- MLA ----------
Dell'Erba, M.G., Zemba, G.R. "Thermodynamics of a model for RNA folding" . Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, vol. 79, no. 1, 2009.
http://dx.doi.org/10.1103/PhysRevE.79.011913
---------- VANCOUVER ----------
Dell'Erba, M.G., Zemba, G.R. Thermodynamics of a model for RNA folding. Phys. Rev. E Stat. Nonlinear Soft Matter Phys. 2009;79(1).
http://dx.doi.org/10.1103/PhysRevE.79.011913