Error Propagation in the Hypercycle

We study analytically the steady-state regime of a network of n error-prone self-replicating templates forming an asymmetric hypercycle and its error tail. We show that the existence of a master template with a higher non-catalyzed self-replicative productivity, a, than the error tail ensures the stability of chains in which m<n-1 templates coexist with the master species. The stability of these chains against the error tail is guaranteed for catalytic coupling strengths (K) of order of a. We find that the hypercycle becomes more stable than the chains only for K of order of a2. Furthermore, we show that the minimal replication accuracy per template needed to maintain the hypercycle, the so-called error threshold, vanishes like sqrt(n/K) for large K and n<=4

Prospects and status of quark mass renormalization in three-flavour QCD

We present the current status of a revised strategy to compute the running of renormalized quark masses in QCD with three flavours of massless O(a) improved Wilson quarks. The strategy employed uses the standard finite-size scaling method in the Schr\"odinger functional and accommodates for the non-perturbative scheme-switch which becomes necessary at intermediate renormalized couplings as discussed in [arXiv:1411.7648].Comment: 7 pages, 3 figures, 1 table; Proceedings of the 33rd International Symposium on Lattice Field Theory, 14-18 July 2015, Kobe, Japa

Confidence Statements for Ordering Quantiles

This work proposes Quor, a simple yet effective nonparametric method to compare independent samples with respect to corresponding quantiles of their populations. The method is solely based on the order statistics of the samples, and independence is its only requirement. All computations are performed using exact distributions with no need for any asymptotic considerations, and yet can be run using a fast quadratic-time dynamic programming idea. Computational performance is essential in high-dimensional domains, such as gene expression data. We describe the approach and discuss on the most important assumptions, building a parallel with assumptions and properties of widely used techniques for the same problem. Experiments using real data from biomedical studies are performed to empirically compare Quor and other methods in a classification task over a selection of high-dimensional data sets

Raman-scattering study of the phonon dispersion in twisted bi-layer graphene

Bi-layer graphene with a twist angle \theta\ between the layers generates a superlattice structure known as Moir\'{e} pattern. This superlattice provides a \theta-dependent q wavevector that activates phonons in the interior of the Brillouin zone. Here we show that this superlattice-induced Raman scattering can be used to probe the phonon dispersion in twisted bi-layer graphene (tBLG). The effect reported here is different from the broadly studied double-resonance in graphene-related materials in many aspects, and despite the absence of stacking order in tBLG, layer breathing vibrations (namely ZO' phonons) are observed.Comment: 18 pages, 4 figures, research articl

Evolution of clonal populations approaching a fitness peak

Populations facing novel environments are expected to evolve through the accumulation of adaptive substitutions. The dynamics of adaptation depend on the fitness landscape and possibly on the genetic background on which new mutations arise. Here, we model the dynamics of adaptive evolution at the phenotypic and genotypic levels, focusing on a Fisherian landscape characterized by a single peak. We find that Fisher's geometrical model of adaptation, extended to allow for small random environmental variations, is able to explain several features made recently in experimentally evolved populations. Consistent with data on populations evolving under controlled conditions, the model predicts that mean population fitness increases rapidly when populations face novel environments and then achieves a dynamic plateau, the rate of molecular evolution is remarkably constant over long periods of evolution, mutators are expected to invade and patterns of epistasis vary along the adaptive walk. Negative epistasis is expected in the initial steps of adaptation but not at later steps, a prediction that remains to be tested. Furthermore, populations are expected to exhibit high levels of phenotypic diversity at all times during their evolution. This implies that populations are possibly able to adapt rapidly to novel abiotic environments.CAPES-IGC

Stabilization of Extra Dimensions and The Dimensionality of the Observed Space

We present a simple model for the late time stabilization of extra dimensions. The basic idea is that brane solutions wrapped around extra dimensions, which is allowed by string theory, will resist expansion due to their winding mode. The momentum modes in principle work in the opposite way. It is this interplay that leads to dynamical stabilization. We use the idea of democratic wrapping \cite{art5}-\cite{art6}, where in a given decimation of extra dimensions, all possible winding cases are considered. To simplify the study further we assumed a symmetric decimation in which the total number of extra dimensions is taken to be $Np$ where N can be called the order of the decimation. We also assumed that extra dimensions all have the topology of tori. We show that with these rather conservative assumptions, there exists solutions to the field equations in which the extra dimensions are stabilized and that the conditions do not depend on $p$. This fact means that there exists at least one solution to the asymmetric decimation case. If we denote the number of observed space dimensions (excluding time) by $m$, the condition for stabilization is $m\geq 3$ for pure Einstein gravity and $m\leq 3$ for dilaton gravity massaged by string theory parameters.Comment: Final versio

Ultrahigh Transmission Optical Nanofibers

We present a procedure for reproducibly fabricating ultrahigh transmission optical nanofibers (530 nm diameter and 84 mm stretch) with single-mode transmissions of 99.95 $\pm$ 0.02%, which represents a loss from tapering of 2.6 $\,\times \,$ 10$^{-5}$ dB/mm when normalized to the entire stretch. When controllably launching the next family of higher-order modes on a fiber with 195 mm stretch, we achieve a transmission of 97.8 $\pm$ 2.8%, which has a loss from tapering of 5.0 $\,\times \,$ 10$^{-4}$ dB/mm when normalized to the entire stretch. Our pulling and transfer procedures allow us to fabricate optical nanofibers that transmit more than 400 mW in high vacuum conditions. These results, published as parameters in our previous work, present an improvement of two orders of magnitude less loss for the fundamental mode and an increase in transmission of more than 300% for higher-order modes, when following the protocols detailed in this paper. We extract from the transmission during the pull, the only reported spectrogram of a fundamental mode launch that does not include excitation to asymmetric modes; in stark contrast to a pull in which our cleaning protocol is not followed. These results depend critically on the pre-pull cleanliness and when properly following our pulling protocols are in excellent agreement with simulations.Comment: 32 pages, 10 figures, accepted to AIP Advance