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We find a series of topological phase transitions of increasing order, beyond the more standard second-order phase transition in a one-dimensional topological superconductor. The jumps in the order of the transitions depend on the range of…
In evolution, the effects of a single deleterious mutation can sometimes be compensated for by a second mutation which recovers the original phenotype. Such epistatic interactions have implications for the structure of genome space -…
When a second-order phase transition is crossed at fine rate, the evolution of the system stops being adiabatic as a result of the critical slowing down in the neighborhood of the critical point. In systems with a topologically nontrivial…
Within the context of mass-varying neutrinos, we construct a cosmological model that has a phase transition in the electromagnetic fine structure constant \alpha at a redshift of 0.5. The model accommodates hints of a time variable \alpha…
First order phase transitions occur discretely from one state to another, however they often display continuous behavior. To understand this nature, it is essential to probe how the emergent phase nucleates, interacts and evolves with the…
Consider a critical random multigraph $\mathcal{G}_n$ with $n$ vertices constructed by the configuration model such that its vertex degrees are independent random variables with the same distribution $\nu$ (criticality means that the second…
An RNA secondary structure is designable if there is an RNA sequence which can attain its maximum number of base pairs only by adopting that structure. The combinatorial RNA design problem, introduced by Hale\v{s} et al. in 2016, is to…
In this paper we derive the generating function of RNA structures with pseudoknots. We enumerate all $k$-noncrossing RNA pseudoknot structures categorized by their maximal sets of mutually intersecting arcs. In addition we enumerate…
There exists many complicated $k$-noncrossing pseudoknot RNA structures in nature based on some special conditions. The special characteristic of RNA structures gives us great challenges in researching the enumeration, prediction and the…
We consider the fragmentation process with mass loss and discuss self-similar properties of the arising structure both in time and space focusing on dimensional analysis. This exhibits a spectrum of mass exponents $\theta$, whose exact…
The topological phase transition is theoretically studied in a metallic single-wall carbon nanotube (SWNT) by applying a magnetic field $B$ parallel to the tube. The $\mathbb{Z}$ topological invariant, winding number, is changed…
Phyllotaxis, the regular arrangement of leaves or other lateral organs in plants including pineapples, sunflowers and some cacti, has attracted scientific interest for centuries. More recently there has been interest in phyllotaxis within…
We consider the folding of a self-avoiding homopolymer on a lattice, with saturating hydrogen bond interactions. Our goal is to numerically evaluate the statistical distribution of the topological genus of pseudoknotted configurations. The…
The relativistic Hartree-BCS theory is applied to study the temperature dependence of nuclear shape and pairing gap for $^{166}Er$ and $^{170}Er$. For both the nuclei, we find that as temperature increases the pairing gap vanishes leading…
We study metastability and nucleation for the Blume-Capel model: a ferromagnetic nearest neighbour two-dimensional lattice system with spin variables taking values in -1,0,+1. We consider large but finite volume, small fixed magnetic field…
Consider the network of all secondary structures of a given RNA sequence, where nodes are connected when the corresponding structures have base pair distance one. The expected degree of the network is the average number of neighbors, where…
The functional RG for the random field and random anisotropy O(N) sigma-models is studied to two loop. The ferromagnetic/disordered (F/D) transition fixed point is found to next order in d=4+epsilon for N > N_c (N_c=2.8347408 for random…
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance. Here, we report that many pseudoknots can be predicted through long time scales RNA…
The scalar field theory and the scalar electrodynamics quantized in the flat gap are considered. The dynamical effects arising due to the boundary presence with two types of boundary conditions (BC) satisfied by scalar fields are studied.…
In this paper we analyze the length-spectrum of blocks in $\gamma$-structures. $\gamma$-structures are a class of RNA pseudoknot structures that plays a key role in the context of polynomial time RNA folding. A $\gamma$-structure is…