Lengthscales and cooperativity in DNA bubble formation
نویسندگان
چکیده
منابع مشابه
Lengthscales and Cooperativity in DNA Bubble Formation
Z. Rapti, A. Smerzi, K. Ø. Rasmussen and A. R. Bishop 1 Center for Nonlinear Studies, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, and School of Mathematics, Institute for Advanced Study, Einstein Drive 1, Princeton, New Jersey 08540 2 Theoretical Division and Center for Nonlinear Studies, Los Alamos National Laboratory, Los Alamos, New Mexico 87545 and 3 Istituto Nazionale di ...
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Bubbles in DNA are related to fundamental processes such as duplication and transcription. Using a new ensemble technique to trap intermediate states, we present direct measurements of the average length of the denaturation bubble and the statistical weights of the bubble states in the temperature-driven melting of DNA oligomers. For a bubble flanked by double-stranded regions, we find a nuclea...
متن کاملComment on "bubble nucleation and cooperativity in DNA melting".
The conclusions presented by Ares et al. [1] rely on not converged calculations and should be considered with caution. Zeng et al. investigated the temperature evolution of the length of bubbles close to the melting of short DNA sequences and concluded that the average size of ‘‘bubbles in the middle’’ reaches a plateau equal to the number of AT pairs before the two strands separate [2]. Ares e...
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Saúl Ares, 2 N. K. Voulgarakis, K. Ø. Rasmussen, and A. R. Bishop Theoretical Division and Center for Nonlinear Studies, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA Grupo Interdisciplinar de Sistemas Complejos (GISC) and Departamento de Matemáticas, Universidad Carlos III de Madrid, Avenida de la Universidad 30, 28911 Leganés, Madrid, Spain Department of Physics, Universit...
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The base pair fluctuations and helix untwisting are examined for a circular molecule. A realistic mesoscopic model including twisting degrees of freedom and bending of the molecular axis is proposed. The computational method, based on path integral techniques, simulates a distribution of topoisomers with various twist numbers and finds the energetically most favorable molecular conformation as ...
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ژورنال
عنوان ژورنال: Europhysics Letters (EPL)
سال: 2006
ISSN: 0295-5075,1286-4854
DOI: 10.1209/epl/i2005-10543-x