Related papers: Topological Entropy of DNA Sequences
A mathematical interpretation of the usual definition of entropy (for a discrete probability distribution or a trace 1 positive operator) is given. This formulation makes some properties of entropy immediate.
How to find unknown distributions is questioned in many pieces of research. There are several ways to figure them out, but the main question is which acts more reasonably than others. In this paper, we focus on the maximum entropy principle…
In the near future, all the human genes will be identified. But understanding the functions coded in the genes is a much harder problem. For example, by using block entropy, one has that the DNA code is closer to a random code then written…
In computational biology, tandem duplication is an important biological phenomenon which can occur either at the genome or at the DNA level. A tandem duplication takes a copy of a genome segment and inserts it right after the segment - this…
The DNA storage channel is considered, in which a codeword is comprised of $M$ unordered DNA molecules. At reading time, $N$ molecules are sampled with replacement, and then each molecule is sequenced. A coded-index concatenated-coding…
In this paper, some general properties of Shannon information measures are investigated over sets of probability distributions with restricted marginals. Certain optimization problems associated with these functionals are shown to be…
Transitivity, the existence of periodic points and positive topological entropy can be used to characterize complexity in dynamical systems. It is known that for graphs that are not trees, for every $\varepsilon>0,$ there exist (complicate)…
Recent experiments have been able to visualise chromosome organization in fast-growing E.coli cells. However, the mechanism underlying the spatio-temporal organization remains poorly understood. We propose that the DNA adopts a specific…
In connection with the Entropy Conjecture it is known that the topological entropy of a continuous graph map is bounded from below by the spectral radius of the induced map on the first homology group. We show that in the case of a…
The theoretical explanation for deep neural network (DNN) is still an open problem. In this paper DNN is considered as a discrete-time dynamical system due to its layered structure. The complexity provided by the nonlinearity in the…
The concept of entropy in statistical physics is related to the existence of irreversible macroscopic processes. In this work, we explore a recently introduced entropy formula for a class of stochastic processes with more than one absorbing…
The metaphor of a potential epigenetic differentiation landscape broadly suggests that during differentiation a stem cell follows the steepest descending gradient toward a stable equilibrium state which represents the final cell type. It…
The entropy loss due to the formation of one or multiple loops in circular and linear DNA chains is calculated from a scaling approach in the limit of long chain segments. The analytical results allow to obtain a fast estimate for the…
The ground states of topological orders condense extended objects and support topological excitations. This nontrivial property leads to nonzero topological entanglement entropy $S_{topo}$ for conventional topological orders. Fracton…
Lyapunov exponents describe the asymptotic behavior of the singular values of large products of random matrices. A direct computation of these exponents is however often infeasible. By establishing a link between Lyapunov exponents and an…
In this article, I give a definition of topological entropy for random dynamical systems associated to an infinite countable discrete amenable group action. I obtain a variational principle between the topological entropy and measurable…
We introduce a new measure of interdependence among the components of a random vector along the main diagonal of the vector copula, i.e. along the line $u_{1}=\ldots=u_{J}$, for $\left(u_{1},\ldots,u_{J}\right)\in\left[0,1\right]^{J}$. Our…
The asymptotic restriction problem for tensors can be reduced to finding all parameters that are normalized, monotone under restrictions, additive under direct sums and multiplicative under tensor products, the simplest of which are the…
In this paper, we investigate and compare two well-developed definitions of entropy relevant for describing the dynamics of isolated quantum systems: bipartite entanglement entropy and observational entropy. In a model system of interacting…
Let $f_{0,\infty}=\{f_n\}_{n=0}^{\infty}$ be a sequence of continuous self-maps on a compact metric space $X$. Firstly, we obtain the relations between topological sequence entropy of a nonautonomous dynamical system $(X,f_{0,\infty})$ and…