Related papers: Codon Usage Bias Measured Through Entropy Approach
A codon table is a useful tool for mapping codons to amino acids as they have been assigned by nature. It has become a scientific icon because of the way it embodies our understanding of this natural process and the way it immediately…
Skewness measures can be used to measure the level of asymmetry of a distribution. Given the prevalence of statistical methods that assume underlying symmetry, and also the desire for symmetry in order to make meaningful judgements for…
Recent advances in nanotechnology have enabled researchers to manipulate small collections of quantum mechanical objects with unprecedented accuracy. In semiconductor quantum dot qubits, this manipulation requires controlling the dot…
We analyse forty seven chloroplastid genes of the large subunit of RuBisCO, from the Algal order Ectocarpales, sourced from GenBank. Codon-usage weighted by the nucleotide base bias defines our score called the Codon-Impact-Parameter. This…
In the last years several estimation strategies have been formulated to determine the value of an unknown parameter in the most precise way, taking into account the presence of noise. These strategies typically rely on the use of quantum…
In our paper selected linguistic features of genomes to study the statistics of the gene codes are considered. We present the information theory from which it follows that if the system is described by distributions of hyperbolic type it…
By developing a new technique called the bi-coupling argument, we estimate the relative entropy between different diffusion processes in terms of the distances of initial distributions and drift-diffusion coefficients. As an application,…
The kinetic energy of an atom recoiling due to absorption of a photon was measured as a frequency using an interferometric technique called ``contrast interferometry''. Optical standing wave pulses were used as atom-optical elements to…
Measuring and quantifying non-equilibrium dynamics in active biological systems is a major challenge, because of their intrinsic stochastic nature and the limited number of variables accessible in any real experiment. We investigate what…
Imposing a minimum principle in the framework of the so called crystal basis model of the genetic code, we determine the structure of the minimum set of 22 anticodons which allows the translational-transcription for animal mitochondrial…
Codifference is a commonly used measure of dependence for stable vectors and processes for which covariance is infinite. However, we argue that it can also be used for other heavy-tail distributions and it provides useful information for…
We establish a connection between barcode entropy and metric entropy. Namely, we show that the barcode entropy bounds the metric entropy from below for a measure from a specific class of invariant measures associated with a pair of…
A nucleotides sequence is identified, in the two (four) letters alphabet, by the the labels of a vector state of an irreducible representation of U_q(sl(2)) (U_q(sl(2) + sl(2))), in the limit q -> 0. A master equation for the distribution…
Slow fluctuations of a qubit frequency are one of the major problems faced by quantum computers. To understand their origin it is necessary to go beyond the analysis of their spectra. We show that characteristic features of the fluctuations…
For a closed-loop control system with a digital channel between the sensor and the controller, the notion of invariance entropy quantifies the smallest average rate of information transmission above which a given compact subset of the state…
Frequency combs enable precision measurements across timekeeping, spectroscopy, ranging and astronomy, and are now extending to integrated and field-deployable platforms. Realizing their full performance demands a comprehensive account of…
In this work we investigate the behavior of the distortion threshold that can be guaranteed in joint source-channel coding, to within a prescribed excess-distortion probability. We show that the gap between this threshold and the optimal…
The origin and organizing principles of the genetic code remain fundamental puzzles in life science. The vanishingly low probability of the natural codon-to-amino acid mapping arising by chance has spurred the hypothesis that its structure…
The genetic code underlying protein synthesis is a canonical example of a degenerate biological system. Degeneracies in physical and biological systems can be lifted by external perturbations thus allowing degenerate systems to exhibit a…
We show that textual analysis of microbial genomes reveal telling footprints of the early evolution of the genomes. The frequencies of word occurrence of random DNA sequences considered as texts in their four nucleotides are expected to…