Related papers: Statistical Mechanics of DNA Mutation using SUSY Q…
All stem cell fate transitions, including the metabolic reprogramming of stem cells and the somatic reprogramming of fibroblasts into pluripotent stem cells, can be understood from a unified theoretical model of cell fates. Each cell fate…
A dynamical study of the decay of a metastable state by quantum tunneling through an anisotropic, non separable, two-dimensional potential barrier is performed by the numerical solution of the time-dependent Schrodinger equation. Initial…
The mechanical separation of the double helical DNA structure induced by forces pulling apart the two DNA strands (``unzipping'') has been the subject of recent experiments. Analytical results are obtained within various models of…
A method for correcting smearing effects using machine learning technique is presented. Compared to the standard deconvolution approaches in high energy particle physics, the method can use more than one reconstructed variable to predict…
Supersymmetry (SUSY) helps solve the hierarchy problem in high-energy physics and provides a natural groundwork for unifying gravity with other fundamental interactions. While being one of the most promising frameworks for theories beyond…
A fundamental pillar of quantum mechanics concerns indistinguishable quantum particles. In three dimensions they may be classified into fermions or bosons, having, respectively, antisymmetric or symmetric wave functions under particle…
Recently, some authors have shown that a DNA molecule produces electromagnetic signals and communicates with other DNA molecules or other molecules. In fact, a DNA acts like a receiver or transmitter of radio waves. In this paper, we…
We propose a model for the fluctuation dynamics of the local denaturation zones (bubbles) in double-stranded DNA. In our formulation, the DNA strand is model as a one dimensional Rouse chain confined at both the ends. The bubble is formed…
We overcome the barrier of constructing N=4 superconformal models in one space dimension for more than three particles. The D(2,1;alpha) superalgebra of our systems is realized on the coordinates and momenta of the particles, their…
We provide a complete thermodynamic solution of a 1D hopping model in the presence of a random potential by obtaining the density of states. Since the partition function is related to the density of states by a Laplace transform, the…
Electronic properties of DNA are believed to play a crucial role in many phenomena in living organisms, for example the location of DNA lesions by base excision repair (BER) glycosylases and the regulation of tumor-suppressor genes such as…
We study the size fluctuations of a local denaturation zone in a DNA molecule in the presence of proteins that selectively bind to single-stranded DNA, based on a (2+1)-dimensional master equation. By tuning the physical parameters we can…
We exploit the supersymmetric invariant restrictions (SUSYIRs) on the supervariables to derive the nilpotent N = 2 SUSY transformations for the supersymmetric quantum mechanical model of the motion of a charged particle in the X-Y plane…
Motivated by the duality of normalizable states and the presence of the quasi-parity quantum number q=+/-1 in PT symmetric (non-Hermitian) quantum mechanical potential models, the relation of PT symmetry and supersymmetry (SUSY) is studied.…
We study theoretically the mechanical failure of a simple model of double stranded DNA under an applied shear. Starting from a more microscopic Hamiltonian that describes a sheared DNA, we arrive at a nonlinear generalization of a ladder…
As a living information and communications system, the genome encodes patterns in single nucleotide polymorphisms (SNPs) reflecting human adaption that optimizes population survival in differing environments. This paper mathematically…
We study DNA self-assembly and DNA computation using a coarse-grained DNA model within the directional dynamic bonding framework {[}C. Svaneborg, Comp. Phys. Comm. 183, 1793 (2012){]}. In our model, a single nucleotide or domain is…
Over the past years, the ever-growing trend on data storage demand, more specifically for "cold" data (rarely accessed data), has motivated research for alternative systems of data storage. Because of its biochemical characteristics,…
We solve the quantum mechanical problem of a charged particle on S^2 in the background of a magnetic monopole for both bosonic and supersymmetric cases by constructing Hilbert space and realizing the fundamental operators obeying…
We present a general framework to study the thermodynamic denaturation of double-stranded DNA under superhelical stress. We report calculations of position- and size-dependent opening probabilities for bubbles along the sequence. Our…