Related papers: Expectation of the Site Frequency Spectrum
The transmission spectrum of a high-finesse optical cavity containing an arbitrary number of trapped atoms is presented. We take spatial and motional effects into account and show that in the limit of strong coupling, the important spectral…
The radiation pattern of transmit antennas varies and fluctuates as receivers change their location, other objects move around, and due to the antenna design itself. In this paper, we demonstrate how this observation can be exploited to…
The phage $\lambda$ infection of an \textit{E. coli} cell has become a paradigm for understanding the molecular processes involved in gene expression and cell signaling. This system provides an example of a genetic switch, as cells with…
We introduce a model of DNA sequence evolution which can account for biases in mutation rates that depend on the identity of the neighboring bases. An analytic solution for this class of non-equilibrium models is developed by adopting…
In this paper we explore the features of a graph generated by random walkers with nodes that have evolutionary attractiveness and Boltzmann-like transition probabilities that depend both on the euclidean distance between the nodes and on…
A recently developed wavelet based approach is employed to characterize the scaling behavior of spectral fluctuations of random matrix ensembles, as well as complex atomic systems. Our study clearly reveals anti-persistent behavior and…
A large variety of dynamical processes that take place on networks can be expressed in terms of the spectral properties of some linear operator which reflects how the dynamical rules depend on the network topology. Often such spectral…
The identification of increasingly smaller signal from objects observed with a non-perfect instrument in a noisy environment poses a challenge for a statistically clean data analysis. We want to compute the probability of frequencies…
Large populations may contain numerous simultaneously segregating polymorphisms subject to natural selection. Since selection acts on individuals whose fitness depends on many loci, different loci affect each other's dynamics. This leads to…
We study the evolution of allele frequencies in a large population where random mating is violated in a particular way that is related to recent works on speciation. Specifically, we consider non-random encounters in haploid organisms…
Shannon information has, in the past, been applied to quantify the genetic diversity of many natural populations. Here, we apply the Shannon concept to consecutive generations of alleles as they evolve over time. We suppose a genetic system…
We obtain sequences of inclusion sets for the spectrum, essential spectrum, and pseudospectrum of banded, in general non-normal, matrices of finite or infinite size. Each inclusion set is the union of the pseudospectra of certain…
Frequency tagging is a powerful approach to investigate the neural processing of sensory features, and is recently adapted to study the neural correlates of superordinate structures, i.e., chunks, in complex sequences such as speech and…
Over time, a population acquires neutral genetic substitutions as a consequence of random drift. A famous result in population genetics asserts that the rate, $K$, at which these substitutions accumulate in the population coincides with the…
The flow of quantum information in local dephasing channels is analyzed over short and long times in case the structured reservoirs of frequency modes exhibit a spectral gap in the density of modes over low frequencies. The presence of the…
Sex difference in allele frequency is an emerging topic that is critical to our understanding of ascertainment bias, as well as data quality particularly of the largely overlooked X chromosome. To detect sex difference in allele frequency…
We present the current status of our construction of synthetic spectra for type Ia supernovae. These properly take into account the effects of NLTE and an adequate representation of line blocking and blanketing. The models are based on a…
It is basic question in biology and other fields to identify the char- acteristic properties that on one hand are shared by structures from a particular realm, like gene regulation, protein-protein interaction or neu- ral networks or…
Phylogenetics uses alignments of molecular sequence data to learn about evolutionary trees relating species. Along branches, sequence evolution is modelled using a continuous-time Markov process characterised by an instantaneous rate…
Shannon information (SI) and its special case, divergence, are defined for a DNA sequence in terms of probabilities of chemical words in the sequence and are computed for a set of complete genomes highly diverse in length and composition.…