Related papers: Theoretical investigation of finite size effects a…
We study the impact of mutations (changes in amino acid sequence) on the thermodynamics of simple protein-like heteropolymers consisting of N monomers, representing the amino acid sequence. The sequence is designed to fold into its native…
We study the finite-size effects on the deconfinement phase transition (DPT) of hot and / or dense hadronic matter, using a simple thermodynamic model based on the assumption of coexistence of confined and deconfined phases in a finite…
To study the kinetics of phase separation in active matter systems, we consider models that impose a Vicsek-type self-propulsion rule on otherwise passive particles interacting via the Lennard-Jones potential. Two types of kinetics are of…
For short DNA molecules in crowded environments, we evaluate macroscopic parameters such as the average end-to-end distance and the twist conformation by tuning the strength of the site specific confinement driven by the crowders. The…
We study the effect of crowders on the melting profile of homogeneous and heterogeneous DNA molecules. We find out the melting profile of short DNA molecules and compare our findings with the experiments. We consider some random…
We study finite-size effects on the dynamics of a one-dimensional zero-range process which shows a phase transition from a low-density disordered phase to a high-density condensed phase. The current fluctuations in the steady state show…
One-dimensional thermodynamic instabilities are phase transitions not prohibited by Landau's argument, because the energy of the domain wall (DW) which separates the two phases is infinite. Whether they actually occur in a given system of…
Two significant consequences of quantum fluctuations are entanglement and criticality. Entangled states may not be critical but a critical state shows signatures of universality in entanglement. A surprising result found here is that the…
The ensemble of RNA secondary structures of uniform sequences is studied analytically. We calculate the partition function for very long sequences and discuss how the cross-over length, beyond which asymptotic scaling laws apply, depends on…
We consider four- and six-fermion interacting models at finite temperature and density. We construct the corresponding free energies and investigate the appearance of first- and second-order phase transitions. Finite-size effects on the…
Thermal and magnetic effects in a system consisting of thin layers of coupled Ising spins with $S=1/2$ and $S=1$ are considered. The specific heat and the correlation length display maxima at two different temperatures. It is discussed in…
We discuss the thermodynamic behaviour near the force induced unzipping transition of a double stranded DNA in two different ensembles. The Y-fork is identified as the coexisting phases in the fixed distance ensemble. From finite size…
We investigate the kinetics of the DNA melting transition using modified versions of the Peyrard-Dauxois-Bishop and Poland-Scheraga models that include long and short range interactions. Using Brownian dynamics and Monte Carlo simulations,…
The finite-size scaling theory for continuous phase transition plays an important role in determining critical point and critical exponents from the size-dependent behaviors of quantities in the thermodynamic limit. For percolation phase…
We use a statistical mechanical model to study nonthermal denaturation of DNA in the presence of protein-mediated loops. We find that looping proteins which randomly link DNA bases located at a distance along the chain could cause a…
The transition from a many-body localized phase to a thermalizing one is a dynamical quantum phase transition which lies outside the framework of equilibrium statistical mechanics. We provide a detailed study of the critical properties of…
The flexibility of short DNA chains is investigated via computation of the average correlation function between dimers which defines the persistence length. Path integration techniques have been applied to confine the phase space available…
We report studies of the equilibrium and the dynamics of a general set of lattice models which capture the essence of the force-induced or mechanical DNA unzipping transition. Besides yielding the whole equilibrium phase diagram in the…
We analyze a microscopic RNA model, which includes two widely used models as limiting cases, namely it contains terms for bond as well as for stacking energies. We numerically investigate possible changes in the qualitative and quantitative…
DNA has a well-defined structural transition -- the denaturation of its double-stranded form into two single strands -- that strongly affects its thermal transport properties. We show that, according to a widely implemented model for DNA…