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The three-dimensional organization of chromatin is thought to play an important role in controlling gene expression. Specificity in expression is achieved through the interaction of transcription factors and other nuclear proteins with…
We study an intrinsic curvature model defined on fixed-connectivity triangulated lattices enclosing a spherical core by using the canonical Monte Carlo simulation technique. We find that the model undergoes a discontinuous transition of…
DNA and RNA are generally regarded as central molecules in molecular biology. Recent advancements in the field of DNA/RNA nanotechnology successfully used DNA/RNA as programmable molecules to construct molecular machines and nanostructures…
We study the deconfining transition of SU(N) gauge theories in 2+1 dimensions for N ranging between N=2 and N=8. We confirm that the transition is second order for N<4 and first order for N>4. For the more delicate case of SU(4) all our…
Molecular biology explains function of molecules by their geometrical and electronical structures that are mainly determined by utilization of quantum effects in chemistry. However, further quantum effects are not thought to play any…
We point out, according to the principle of entropy growth, that the volume occupied by the system in the momentum space should expand during the first-order phase transition. Such an expansion is visualized by the simulation using the…
Confinement is an intriguing phenomenon prevalent in condensed matter and high-energy physics. Exploring its effect on the far-from-equilibrium criticality of quantum many-body systems is of great interest both from a fundamental and…
The 3D organisation of the genome in interphase cells is not a randomly folded polymer. Rather, experiments show that chromosomes arrange into a network of 3D compartments that correlate with biological processes, such as transcription,…
The first-order phase transition in the one-dimensional $q$-state Potts model with long-range interactions decaying with distance as $1/r^{1+\sigma}$ has been studied by Monte Carlo numerical simulations for $0 < \sigma \le 1$ and integer…
Quantum phase transitional behavior of a finite periodic XX spin-1/2 chain with nearest neighbor interaction in a uniform transverse field is studied based on the simple exact solutions. It is found that there are [N/2] level-crossing…
First-order irreversible phase transitions (IPT's) between an active regime and an absorbing state are studied in two models by means of both simulations and mean-field stability analysis. Hysteresis around coexistence is the result of the…
First-order phase transitions are commonly associated with a discontinuous behavior of some of the thermodynamic variables and the presence of a latent heat. In the present study it is shown that this is not necessarily the case. Using…
An exactly solvable reaction-diffusion model consisting of first-class particles in the presence of a single second-class particle is introduced on a one-dimensional lattice with periodic boundary condition. The number of first-class…
A model of self-avoiding walk with suitable constraints on self-attraction is developed to describe the conformational behavior of a short RNA or a single stranded DNA molecule that forms hairpin structure and calculate the properties…
A spatially extended classical system with metastable states subject to weak spatiotemporal noise can exhibit a transition in its activation behavior when one or more external parameters are varied. Depending on the potential, the…
I explore various scenarios for the phase transition within neutron-star matter. I do so by generating large model-agnostic ensemble using Gaussian processes, both with and without explicit inclusion of first-order phase transitions…
The equation of state of hot, dense nuclear matter plays a fundamental role in many areas. However, owing to the nonperturbative nature of strong interactions, a reliable treatment is still under debate. We use a symmetry-preserving…
The pair interaction between two stiff parallel linear DNA molecules depends not only on the distance between their axes but on their azimuthal orientation. The positional and orientational order in columnar B-DNA assemblies in solution is…
Deformation of single stranded DNA in translocation process before reaching the pore is investigated. By solving the Laplace equation in a suitable coordinate system and with appropriate boundary conditions, an approximate solution for the…
Using the renormalization group approach, we consider the $O(N)\otimes O(M)$ model in four and more dimensions. We find that independently on $N$ and $M$, for $N\geq M\geq 2$, a transition can be of both the first and second order. In…