Related papers: Codon Distributions in DNA
Parton evolution with the rapidity essentially is a branching diffusion process. We describe the fluctuations of the density of partons which affect the properties of QCD scattering amplitudes at moderately high energies. We arrive at…
Bioinformatics, as an emerging and rapidly developing interdisciplinary, has become a promising and popular research field in 21st century. Extracting and explaining useful biological information from huge amount of genetic data is an…
An approach based on using the idea of distinguished coding phase in explicit form for identification of protein-coding regions (exons) in whole genome has been proposed. For several genomes an optimal window length for averaging GC-content…
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…
With the number of fully-sequenced genomes now well over a hundred it has become possible to start investigating if there are any quantitative regularities in the genetic make-up of genomes. In (physics/0307001), I originally showed that…
The structure of generalized parton distributions is determined from light-front holographic QCD up to a universal reparametrization function $w(x)$ which incorporates Regge behavior at small $x$ and inclusive counting rules at $x \to 1$. A…
How robust is the natural genetic code with respect to mistranslation errors? It has long been known that the genetic code is very efficient in limiting the effect of point mutation. A misread codon will commonly code either for the same…
We review the calculation of moments of both the polarized and unpolarized parton distribution functions of the nucleon in lattice QCD, and in particular their extrapolation to the physical region. We also discuss the reconstruction of the…
Biological cells replicate their genomes in a well-planned manner. The DNA replication program of an organism determines the timing at which different genomic regions are replicated, with fundamental consequences for cell homeostasis and…
In the large momentum transfer limit, generalized parton distributions can be calculated through a QCD factorization theorem which involves perturbatively-calculable hard kernels and light-cone parton distribution amplitudes of hadrons. We…
For a given permutation or set partition there is a natural way to assign a genus. Counting all permutations or partitions of a fixed genus according to cycle lengths or block sizes, respectively, is the main content of this article. After…
We examine the problem of family size statistics (the number of individuals carrying the same surname, or the same DNA sequence) in a given size subsample of an exponentially growing population. We approach the problem from two directions.…
Essential genes constitute the core of genes which cannot be mutated too much nor lost along the evolutionary history of a species. Natural selection is expected to be stricter on essential genes and on conserved (highly shared) genes, than…
Categorical random variables are a common staple in machine learning methods and other applications across disciplines. Many times, correlation within categorical predictors exists, and has been noted to have an effect on various algorithm…
It is a well-known fact that genetic sequences may contain sections with repeated units, called repeats, that differ in length over a population, with a length distribution of geometric type. A simple class of recombination models with…
In a scenario where the constituent quarks are composite systems, Generalized Parton Distributions (GPDs) are built from wave functions to be evaluated in a Constituent Quark Model (CQM), convoluted with the GPDs of the constituent quarks…
The quark generalised parton distributions of the pion are calculated from lightcone wavefunctions in transverse lattice gauge theory at large N_c. The pion effective size is found to decrease with increasing momentum transfer. An analytic…
We investigate the distribution of cells by dimension in cylindrical algebraic decompositions (CADs). We find that they follow a standard distribution which seems largely independent of the underlying problem or CAD algorithm used. Rather,…
We build networks of genetic similarity in which the nodes are organisms sampled from biological populations. The procedure is illustrated by constructing networks from genetic data of a marine clonal plant. An important feature in the…
Generalized parton distributions (GPDs) characterize the 3-dimensional structure of hadrons, combining information about their internal quark and gluon longitudinal momentum distributions and transverse position within the hadron. The…