相关论文: Codon Usage Bias Measured Through Entropy Approach

Topological and metric entropies of the DNA sequences from different organisms were calculated. Obtained results were compared each other and with ones of corresponding artificial sequences. For all envisaged DNA sequences there is a…

Consensus is a common method for computing a function of the data distributed among the nodes of a network. Of particular interest is distributed average consensus, whereby the nodes iteratively compute the sample average of the data stored…

A self-organizing approach is proposed for gene finding based on the model of codon usage for coding regions and positional preference for noncoding regions. The symmetry between the direct and reverse coding regions is adopted for reducing…

This article investigates the possibility to use the class entropy of the output of a connectionist phoneme recogniser to predict time boundaries between phonetic classes. The rationale is that the value of the entropy should increase in…

The decision whether a measured distribution complies with an equidistribution is a central element of many biostatistical methods. High throughput differential expression measurements, for instance, necessitate to judge possible…

Frequency metrology lies at the heart of precision measurement. Optical frequency combs provide a coherent link uniting the microwave and optical domains in the electromagnetic spectrum, with profound implications in timekeeping, sensing…

Frequency combs are a spectrum of equally spaced frequency components with very high time-frequency accuracy, which have been widely used in the optical and microwave frequency ranges. We propose the realization of a frequency comb…

Compressed Counting (CC) [22] was recently proposed for estimating the ath frequency moments of data streams, where 0 < a <= 2. CC can be used for estimating Shannon entropy, which can be approximated by certain functions of the ath…

Entropy estimation plays a significant role in biology, economics, physics, communication engineering and other disciplines. It is increasingly used in software engineering, e.g. in software confidentiality, software testing, predictive…

This is a preliminary article stating and proving a new maximum entropy theorem. The entropies that we consider can be used as measures of biodiversity. In that context, the question is: for a given collection of species, which frequency…

By coupling on chip a carbon nanotube to a quantum noise detector, a superconductor-insulator-superconductor junction, via a resonant circuit, we measure the emission noise of a carbon nanotube quantum dot in the Kondo regime. The signature…

We describe a simple method to experimentally determine the frequency dependencies of the per-unit-length resistance and conductance of transmission lines. The experiment is intended as a supplement to the classic measurement of the…

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…

The measurement range problem, where one cannot determine the data outside the range of the detector, limits the characterization of entanglement in high-dimensional quantum systems when employing, among other tools from information theory,…

Shannon entropy is widely used to measure the complexity of DNA sequences but suffers from saturation effects that limit its discriminative power for long uniform segments. We introduce a novel metric, the entropy rank ratio R, which…

Cells can be considered as systems that utilize changes in thermodynamic entropy as information. Therefore, they serve as useful models for investigating the relationships between entropy production and information transmission, i.e.,…

The universal genetic code presents a fundamental paradox in molecular biology. Recent advances in synthetic biology have demonstrated that the code is remarkably flexible--organisms can survive with 61 codons instead of 64, natural…

We report first principles analysis of electron-phonon coupling in molecular devices under external bias voltage and during current flow. Our theory and computational framework are based carrying out density functional theory within the…

For a simple model of mutually interacting qubits it is shown how the errors induced by mutual interactions can be eliminated using concatenated coding. The model is solved exactly for arbitrary interaction strength, for two well-known…

Quantification of microbial interactions from 16S rRNA and meta-genomic sequencing data is difficult due to their sparse nature, as well as the fact that the data only provides measures of relative abundance. In this paper, we propose using…