相关论文: Mutation model for oligonucleotides fitting a Yule…

The codons, sixtyfour in number, are distributed over the coding parts of DNA sequences. The distribution function is the plot of frequency-versus-rank of the codons. These distributions are characterised by parameters that are almost…

Forecasting the change in the distribution of viral variants is crucial for therapeutic design and disease surveillance. This task poses significant modeling challenges due to the sharp differences in virus distributions across…

Despite long-term research, the origin of spin cutoff in the angular-momentum (spin) distribution of nuclear level densities remains incompletely elucidated. We demonstrate that this problem can be traced back to Bethe's assumption that…

Motivated by empirical observations of algebraic duplicated sequence length distributions in a broad range of natural genomes, we analytically formulate and solve a class of simple discrete duplication/substitution models that generate…

We compare a recent lattice determination of the nucleon distribution amplitudes with other approaches and models. We study the nucleon distribution amplitudes up to twist 6 in next-to leading conformal spin and we also investigate…

Sequencing by synthesis is the underlying technology for many next-generation DNA sequencing platforms. We developed a new model, the fixed flow cycle model, to derive the distributions of sequence length for a given number of flow cycles…

This paper presents a probabilistic approach for DNA sequence analysis. A DNA sequence consists of an arrangement of the four nucleotides A, C, T and G and different representation schemes are presented according to a probability measure…

In genome mapping experiments, long DNA molecules are stretched by confining them to very narrow channels, so that the locations of sequence-specific fluorescent labels along the channel axis provide large-scale genomic information. It is…

We introduce a framework for analyzing ordinary differential equation (ODE) models of biological networks using statistical model checking (SMC). A key aspect of our work is the modeling of single-cell variability by assigning a probability…

Different numerical mappings of the DNA sequences have been studied using a new cluster-scaling method and the well known spectral methods. It is shown, in particular, that the nucleotide sequences in DNA molecules have robust…

DNA migration in topologically structured microchannels with periodic cavities is investigated experimentally and with Brownian dynamics simulations of a simple bead-spring model. The results are in very good agreement with one another. In…

We introduce a network model to describe two-dimensional disordered electron systems with spin-orbit scattering. The network model is defined by a discrete unitary time evolution operator. We establish by numerical transfer matrix…

We consider so-called simple families of labelled trees, which contain, e.g., ordered, unordered, binary and cyclic labelled trees as special instances, and study the global and local behaviour of the number of inversions. In particular we…

Much evolutionary information is stored in the fluctuations of protein length distributions. The genome size and non-coding DNA content can be calculated based only on the protein length distributions. So there is intrinsic relationship…

The question how the spin of the nucleon is distributed among its quark and gluon constituents is still a subject of intense investigations. Lattice QCD has progressed to provide information about spin fractions and orbital angular momentum…

We construct a dynamical model for the parton distributions in a nucleus by perturbative evolution of input distributions from a low starting scale. These input distributions are obtained by modifications of the corresponding free nucleon…

We define a DNA as a sequence of $\pm 1$'s and embed it on a path of Cayley tree. Using group representation of the Cayley tree, we give a hierarchy of a countable set of DNAs each of which 'lives' on the same Cayley tree. This hierarchy…

We model unzipping of DNA/RNA molecules subject to an external force by a spin-oscillator system. The system comprises a macroscopic degree of freedom, represented by a one-dimensional oscillator, and internal degrees of freedom,…

Periodic patterns play the important regulatory and structural roles in genomic DNA sequences. Commonly, the underlying periodicities should be understood in a broad statistical sense, since the corresponding periodic patterns have been…

We study the isospin dynamics in fragment formation within the framework of an analytical model based on the spinodal decomposition scenario. We calculate the probability to obtain fragments with given charge and neutron number, focussing…