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Open AccessJournal ArticleDOI

Efimov-DNA phase diagram: Three stranded DNA on a cubic lattice.

TLDR
In this article, a generalized model for three-stranded DNA consisting of two chains of one type and a third chain of a different type was defined, and the DNA strands were modeled by random walks on the three-dimensional cubic lattice with different interactions between two chains.
Abstract
We define a generalized model for three-stranded DNA consisting of two chains of one type and a third chain of a different type. The DNA strands are modeled by random walks on the three-dimensional cubic lattice with different interactions between two chains of the same type and two chains of different types. This model may be thought of as a classical analog of the quantum three-body problem. In the quantum situation, it is known that three identical quantum particles will form a triplet with an infinite tower of bound states at the point where any pair of particles would have zero binding energy. The phase diagram is mapped out, and the different phase transitions are examined using finite-size scaling. We look particularly at the scaling of the DNA model at the equivalent Efimov point for chains up to 10 000 steps in length. We find clear evidence of several bound states in the finite-size scaling. We compare these states with the expected Efimov behavior.

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Citations
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Role of Hoogsteen interaction in the stability of different phases of triplex DNA.

TL;DR: In this article , a simple coarse-grained model of DNA which includes both Watson-Crick and Hoogsteen base pairing has been used to study the melting and unzipping of triplex DNA.
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Structure and Dynamics of dsDNA in Cell-like Environments

TL;DR: In this paper , the authors summarized the progress of research on the stability and dynamics of dsDNA in cell-like environments and discuss current challenges and future directions, and provided valuable guidelines for predicting DNA thermodynamic quantities and for designing DNA/RNA nanostructures.
References
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Journal ArticleDOI

Observation of an Efimov spectrum in an atomic system

TL;DR: In this article, the Efimov spectrum, containing two such states with the predicted scaling between them, has been observed, and it is shown that three interacting particles can form an infinite series of bound trimer states, even when none of the two-particle subsystems is stable.
Journal ArticleDOI

Flat histogram version of the pruned and enriched Rosenbluth method.

TL;DR: A flat histogram algorithm based on the pruned and enriched Rosenbluth method, which incorporates in a straightforward manner microcanonical reweighting techniques, leading to "flat histogram" sampling in the chosen parameter space.
Journal ArticleDOI

Observation of Efimov resonances in a mixture with extreme mass imbalance.

TL;DR: Two consecutive heteronuclear Efimov resonances in an ultracold Li-Cs mixture are observed by measuring three-body loss coefficients as a function of magnetic field near a Feshbach resonance.
Journal ArticleDOI

Simple model for the DNA denaturation transition.

TL;DR: Numerical and exact analytic results show that the transition is second order in modified models where the self-avoidance is partially or completely neglected, inspired by a model introduced long ago by Poland and Sheraga for the denaturation transition in DNA.
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