Related papers: A Gibbs approach to Chargaff's second parity rule
For a set of mulitple sequences, their patterns,Longest Common Subsequences (LCS) and Shortest Common Supersequences (SCS) represent different aspects of these sequences profile, and they can all be used for biological sequence comparisons…
The spatial symmetry property of truncated birth-death processes studied in Di Crescenzo [6] is extended to a wider family of continuous-time Markov chains. We show that it yields simple expressions for first-passage-time densities and…
The classical condition on the existence of uniformly exponentially consistent tests for testing the true density against the complement of its arbitrary neighborhood has been widely adopted in study of asymptotics of Bayesian nonparametric…
We analyze protein-protein interaction networks for six different species under the framework of random matrix theory. Nearest neighbor spacing distribution of the eigenvalues of adjacency matrices of the largest connected part of these…
Chiral Symmetry Breaking (CSB) is derived in QCD starting from the QCD Lagrangian and using Field Correlators Method (FCM). The kernel in the resulting equations responsible for CSB is directly connected to confinement, and therefore both…
We address the challenge of identifying all real positive steady states in chemical reaction networks (CRNs) governed by mass-action kinetics. Traditional numerical methods often require specific initial guesses and may fail to find all the…
We present high statistics data on the distribution of shortest path lengths between two near-by points on the same cluster at the percolation threshold. Our data are based on a new and very efficient algorithm. For $d=2$ they clearly…
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…
The aim of this paper is to study the correlation properties of random sequences with additive linear conditional probability distribution function (CPDF) and elaborate a reliable tool for their generation. It is supposed that the state…
Short range correlated (SRC) N N pairs are pairs of nucleons with high relative momentum (prel > kF where kF ~ 250 MeV/c is the Fermi momentum in medium to heavy nuclei) and lower center of mass momentum. The motivation for studying SRC…
We apply the complex Langevin (CL) method to a chiral random matrix theory (ChRMT) at non-zero chemical potential and study the nearest neighbor spacing (NNS) distribution of the Dirac eigenvalues. The NNS distribution is extracted using an…
Causal mediation analysis, pleiotropy analysis, and replication analysis are three highly popular genetic study designs. Although these analyses address different scientific questions, the underlying inference problems all involve…
In this paper, we propose a comprehensive study of second-order consistencies (i.e., consistencies identifying inconsistent pairs of values) for constraint satisfaction. We build a full picture of the relationships existing between four…
This paper studies a Markov chain for phylogenetic reconstruction which uses a popular transition between tree topologies known as subtree pruning-and-regrafting (SPR). We analyze the Markov chain in the simpler setting that the generating…
In this short note, we present supporting evidence for the replica symmetric approach to the random bond q-state Potts models. The evidence is statistically strong enough to reject the applicability of the Parisi replica symmetry breaking…
The investigation of the pair correlation statistics of sequences was initially motivated by questions concerning quasi-energy-spectra of quantum systems. However, the subject has been developed far beyond its roots in mathematical physics,…
We consider DNA codes based on the nearest-neighbor (stem) similarity model which adequately reflects the "hybridization potential" of two DNA sequences. Our aim is to present a survey of bounds on the rate of DNA codes with respect to a…
In a recent article, this author proposed a program for physics beyond the Standard Model, solely based on modifying the twin pillars of fundamental physics by replacing Lorentz structure with Euclidean Jordan algebra while keeping quantum…
The nuclear Chirality-Parity (ChP) violation, a simultaneous breaking of chiral and reflection symmetries in the intrinsic frame, is investigated with a reflection-asymmetric triaxial particle rotor model. A new symmetry for an ideal ChP…
A new model is presented for simulating coherent synchrotron radiation (CSR) in one dimension. The method is based on convolving an integrated Green function (IGF) with the longitudinal charge density. Since it is based on an IGF, the…