Thermodynamics of a model for RNA folding

Mostrar todas las versiones(4)

Abstract: We analyze the thermodynamic properties of a simplified model for folded RNA molecules recently studied by G. Vernizzi, H. Orland, A. Zee (in Phys. Rev. Lett. 94 (2005) 168103). The model consists of a chain of one-flavor base molecules with a flexible backbone and all possible pairing int...

Descripción completa

Guardado en:
Detalles Bibliográficos
Autores principales: Dell'Erba, Matías G., Zemba, Guillermo Raúl
Formato: Artículo
Lenguaje:Inglés
Publicado: American Institute of Physics 2024
Materias:
MOLECULAS DE ARN
PROPIEDADES TERMODINAMICAS
BIOLOGIA
DIAGRAMA DE FEYNMAN
Vernizzi, Graziano
Zee, Anthony
Orland, Henri
Acceso en línea:https://repositorio.uca.edu.ar/handle/123456789/18411
Aporte de:
Repositorio Institucional de la Universidad Católica Argentina (UCA) de Universidad Católica Argentina
id I33-R139-123456789-18411
record_format dspace
spelling I33-R139-123456789-184112024-07-19T05:01:21Z Thermodynamics of a model for RNA folding Dell'Erba, Matías G. Zemba, Guillermo Raúl MOLECULAS DE ARN PROPIEDADES TERMODINAMICAS BIOLOGIA DIAGRAMA DE FEYNMAN Vernizzi, Graziano Zee, Anthony Orland, Henri Abstract: We analyze the thermodynamic properties of a simplified model for folded RNA molecules recently studied by G. Vernizzi, H. Orland, A. Zee (in Phys. Rev. Lett. 94 (2005) 168103). 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 effi- ciently 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 topo- logical 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 Mg++ in solution. 2024-07-18T10:33:52Z 2024-07-18T10:33:52Z 2009 Artículo Dell'Erba MG, Zemba GR. Thermodynamics of a model for RNA folding [en línea]. Physical review E. 2009, E 79 (011913). doi: 10.1103/PhysRevE.79.011913. Disponible en: https://repositorio.uca.edu.ar/handle/123456789/18411 2470-0045 (impreso) 2470-0053 (online) https://repositorio.uca.edu.ar/handle/123456789/18411 10.1103/PhysRevE.79.011913 eng Atribución-NoComercial-CompartirIgual 4.0 Internacional http://creativecommons.org/licenses/by-nc-sa/4.0/ application/pdf American Institute of Physics Physical review. 2008, E 79 (011913).
institution Universidad Católica Argentina
institution_str I-33
repository_str R-139
collection Repositorio Institucional de la Universidad Católica Argentina (UCA)
language Inglés
topic MOLECULAS DE ARN
PROPIEDADES TERMODINAMICAS
BIOLOGIA
DIAGRAMA DE FEYNMAN
Vernizzi, Graziano
Zee, Anthony
Orland, Henri
spellingShingle MOLECULAS DE ARN
PROPIEDADES TERMODINAMICAS
BIOLOGIA
DIAGRAMA DE FEYNMAN
Vernizzi, Graziano
Zee, Anthony
Orland, Henri
Dell'Erba, Matías G.
Zemba, Guillermo Raúl
Thermodynamics of a model for RNA folding
topic_facet MOLECULAS DE ARN
PROPIEDADES TERMODINAMICAS
BIOLOGIA
DIAGRAMA DE FEYNMAN
Vernizzi, Graziano
Zee, Anthony
Orland, Henri
description Abstract: We analyze the thermodynamic properties of a simplified model for folded RNA molecules recently studied by G. Vernizzi, H. Orland, A. Zee (in Phys. Rev. Lett. 94 (2005) 168103). 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 effi- ciently 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 topo- logical 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 Mg++ in solution.
format Artículo
author Dell'Erba, Matías G.
Zemba, Guillermo Raúl
author_facet Dell'Erba, Matías G.
Zemba, Guillermo Raúl
author_sort Dell'Erba, Matías G.
title Thermodynamics of a model for RNA folding
title_short Thermodynamics of a model for RNA folding
title_full Thermodynamics of a model for RNA folding
title_fullStr Thermodynamics of a model for RNA folding
title_full_unstemmed Thermodynamics of a model for RNA folding
title_sort thermodynamics of a model for rna folding
publisher American Institute of Physics
publishDate 2024
url https://repositorio.uca.edu.ar/handle/123456789/18411
work_keys_str_mv AT dellerbamatiasg thermodynamicsofamodelforrnafolding
AT zembaguillermoraul thermodynamicsofamodelforrnafolding
_version_ 1807949588229783552

Ejemplares similares