Related papers: Inverted and mirror repeats in model nucleotide se…
The replicated field theory of the random field Ising model involves the couplings of replicas of different indices. The resulting correlation functions involve a superposition of different types of long distance behaviours. However the…
In computational inverse problems, it is common that a detailed and accurate forward model is approximated by a computationally less challenging substitute. The model reduction may be necessary to meet constraints in computing time when…
A protocell model consisting of mutually catalyzing molecules is studied in order to investigate how chemical compositions are transferred recursively through cell divisions under replication errors. Depending on the path rate, the numbers…
Recognition of pathogens relies on families of proteins showing great diversity. Here we construct maximum entropy models of the sequence repertoire, building on recent experiments that provide a nearly exhaustive sampling of the IgM…
Repetitive elements are important in genomic structures, functions and regulations, yet effective methods in precisely identifying repetitive elements in DNA sequences are not fully accessible, and the relationship between repetitive…
We explore the large-scale behavior of nucleotide compositional strand asymmetries along human chromosomes. As we observe for 7 of 9 origins of replication experimentally identified so far, the (TA+GC) skew displays rather sharp upward…
When two Markov operators commute, it suggests that we can couple two copies of one of the corresponding processes. We explicitly construct a number of couplings of this type for a commuting family of Markov processes on the set of…
Neutron reflectometry analysis is an inherently ill-posed, which is to say that there are many possible solutions which agree equally well with the measured data. This leads to the application of model-dependent analysis, where information…
After decades, the theoretical study of core-collapse supernova explosions is moving from parameterized, spherically symmetric models to increasingly realistic multi-dimensional simulations. Obtaining nucleosynthesis yields based on such…
We consider the mirrors model in $d$ dimensions on an infinite slab and with unit density. This is a deterministic dynamics in a random environment. We argue that the crossing probability of the slab goes like $\kappa/(\kappa+N)$ where $N$…
The analysis of correlations of amino acid occurrences in globular proteins has led to the development of statistical tools that can identify native contacts -- portions of the chains that come to close distance in folded structural…
Coherent backscattering is a coherence effect in the propagation of waves through disordered media involving two or more scattering events. Here, we report on the observation of coherent backscattering from individual atoms and their mirror…
Parity-violating polarized electron scattering from nucleons and nuclei provides an excellent tool to extract valuable information on nuclear and nucleon structure, as well as to determine Standard Model couplings and higher-order radiative…
The propagation of monochromatic light through a scattering medium produces speckle patterns in reflection and transmission, and the apparent randomness of these patterns prevents direct imaging through thick turbid media. Yet, since…
Reciprocal transformations mix the role of the dependent and independent variables of (nonlinear partial) differential equations to achieve simpler versions or even linearized versions of them. These transformations help in the…
Models of biochemical networks are usually presented as connected graphs where vertices indicate proteins and edges are drawn to indicate activation or inhibition relationships. These diagrams are useful for drawing qualitative conclusions…
We find a new set of exact solutions to Maxwell's equations in space--time varying materials, where the refractive index is constant, while the impedance exhibits effective motion, i.e. it is a function of $x-vt$. We find that waves…
Prime number multiplet classifications and patterns are extended to negative integers. The extension from prime numbers to single prime powers is also studied. Prime number septets at equal distance are given. It is also shown that each…
In this paper we introduce some new copulas emerging from shock models. It was shown earlier that reflected maxmin copulas (RMM for short) are not just some specific singular copulas; they contain many important absolutely continuous…
Alignment algorithms usually rely on simplified models of gaps for computational efficiency. Based on an isomorphism between alignments and physical helix-coil models, we show in statistical mechanics that alignments with realistic laws for…