Using Microarrays to Facilitate Positional Cloning: Identification of Tomosyn as an Inhibitor of Neurosecretion

Forward genetic screens have been used as a powerful strategy to dissect complex biological pathways in many model systems. A significant limitation of this approach has been the time-consuming and costly process of positional cloning and molecular characterization of the mutations isolated in these screens. Here, the authors describe a strategy using microarray hybridizations to facilitate positional cloning. This method relies on the fact that premature stop codons (i.e., nonsense mutations) constitute a frequent class of mutations isolated in screens and that nonsense mutant messenger RNAs are efficiently degraded by the conserved nonsense-mediated decay pathway. They validate this strategy by identifying two previously uncharacterized mutations: (1) tom-1, a mutation found in a forward genetic screen for enhanced acetylcholine secretion in Caenorhabditis elegans, and (2) an apparently spontaneous mutation in the hif-1 transcription factor gene. They further demonstrate the broad applicability of this strategy using other known mutants in C. elegans, Arabidopsis, and mouse. Characterization of tom-1 mutants suggests that TOM-1, the C. elegans ortholog of mammalian tomosyn, functions as an endogenous inhibitor of neurotransmitter secretion. These results also suggest that microarray hybridizations have the potential to significantly reduce the time and effort required for positional cloning

Does the Johari-Goldstein β-Relaxation Exist in Polypropylene Glycols?

Secondary relaxations with properties closely related to the α-relaxation have fundamental importance in glass-forming substances including polymers. To distinguish these secondary relaxations from those involving intramolecular degrees of freedom, they are called the Johari-Goldstein (JG) β-relaxations. Acting as the precursor of the α-relaxation, the JG β-relaxation is supposedly ubiquitous in all glass-formers, a thesis supported by experiments on a variety of glass-formers. Notwithstanding, the JG β-relaxation has not been identified definitively in the hydroxyl-terminated polypropylene glycols (PPGs) with various molecular weights, despite these polymers have been intensively studied experimentally in the last several decades. The difficulty of finding the JG β-relaxation is due to the presence of a faster intramolecular -relaxation and a slower relaxation originating from residual water. This is demonstrated in two recent papers by Gainaru et al. Macromolecules 2010, 43, 1907, and Kaminski et al. Macromolecules 2013, 46, 1973. In this paper, we show the presence of the JG β-relaxation in the PPGs from the dielectric relaxation data by using the time honored criterion derived from the coupling model in conjunction with the observed anomalous temperature dependence of the -relaxation caused by merging with the JG β-relaxation, and new experimental data obtained by applying pressure on PPG4000 before and after drying the sample to remove the residual water. From the results, we conclude that the behavior of the PPGs is no different from the other glass-formers as far as the omnipresence of the JG β-relaxation is concerned

Out-of-equilibrium thermodynamic relations in systems with aging and slow relaxation

The experimental time scale dependence of thermodynamic relations in out-of-equilibrium systems with aging phenomena is investigated theoretically by using only aging properties of the two-time correlation functions and the generalized fluctuation-dissipation theorem (FDT). We show that there are two experimental time regimes characterized by different thermal properties. In the first regime where the waiting time is much longer than the measurement time, the principle of minimum work holds even though a system is out of equilibrium. In the second regime where both the measurement time and the waiting time are long, the thermal properties are completely different from properties in equilibrium. For the single-correlation-scale systems such as $p$-spin spherical spin-glasses, contrary to a fundamental assumption of thermodynamics, the work done in an infinitely slow operation depends on the path of change of the external field even when the waiting time is infinite. On the other hand, for the multi-correlation-scale systems such as Sherrington-Kirkpatrick model, the work done in an infinitely slow operation is independent of the path. Our results imply that in order to describe thermodynamic properties of systems with aging it is essential to consider the experimental time scales and history of a system as a state variable is necessary.Comment: 28 pages(REVTeX), 4 figure(EPS). To be published in Phys. Rev.

Hierarchy of piecewise non-linear maps with non-ergodicity behavior

We study the dynamics of hierarchy of piecewise maps generated by one-parameter families of trigonometric chaotic maps and one-parameter families of elliptic chaotic maps of $\mathbf{cn}$ and $\mathbf{sn}$ types, in detail. We calculate the Lyapunov exponent and Kolmogorov-Sinai entropy of the these maps with respect to control parameter. Non-ergodicity of these piecewise maps is proven analytically and investigated numerically . The invariant measure of these maps which are not equal to one or zero, appears to be characteristic of non-ergodicity behavior. A quantity of interest is the Kolmogorov-Sinai entropy, where for these maps are smaller than the sum of positive Lyapunov exponents and it confirms the non-ergodicity of the maps.Comment: 18 pages, 8 figure

Non exponential relaxation in fully frustrated models

We study the dynamical properties of the fully frustrated Ising model. Due to the absence of disorder the model, contrary to spin glass, does not exhibit any Griffiths phase, which has been associated to non-exponential relaxation dynamics. Nevertheless we find numerically that the model exhibits a stretched exponential behavior below a temperature T_p corresponding to the percolation transition of the Kasteleyn-Fortuin clusters. We have also found that the critical behavior of this clusters for a fully frustrated q-state spin model at the percolation threshold is strongly affected by frustration. In fact while in absence of frustration the q=1 limit gives random percolation, in presence of frustration the critical behavior is in the same universality class of the ferromagnetic q=1/2-state Potts model.Comment: 7 pages, RevTeX, 11 figs, to appear on Physical Review

Intelligent Financial Fraud Detection Practices: An Investigation

Financial fraud is an issue with far reaching consequences in the finance industry, government, corporate sectors, and for ordinary consumers. Increasing dependence on new technologies such as cloud and mobile computing in recent years has compounded the problem. Traditional methods of detection involve extensive use of auditing, where a trained individual manually observes reports or transactions in an attempt to discover fraudulent behaviour. This method is not only time consuming, expensive and inaccurate, but in the age of big data it is also impractical. Not surprisingly, financial institutions have turned to automated processes using statistical and computational methods. This paper presents a comprehensive investigation on financial fraud detection practices using such data mining methods, with a particular focus on computational intelligence-based techniques. Classification of the practices based on key aspects such as detection algorithm used, fraud type investigated, and success rate have been covered. Issues and challenges associated with the current practices and potential future direction of research have also been identified.Comment: Proceedings of the 10th International Conference on Security and Privacy in Communication Networks (SecureComm 2014

Concentration Dependence of Superconductivity and Order-Disorder Transition in the Hexagonal Rubidium Tungsten Bronze RbxWO3. Interfacial and bulk properties

We revisited the problem of the stability of the superconducting state in RbxWO3 and identified the main causes of the contradictory data previously published. We have shown that the ordering of the Rb vacancies in the nonstoichiometric compounds have a major detrimental effect on the superconducting temperature Tc.The order-disorder transition is first order only near x = 0.25, where it cannot be quenched effectively and Tc is reduced below 1K. We found that the high Tc's which were sometimes deduced from resistivity measurements, and attributed to compounds with .25 < x < .30, are to be ascribed to interfacial superconductivity which generates spectacular non-linear effects. We also clarified the effect of acid etching and set more precisely the low-rubidium-content boundary of the hexagonal phase.This work makes clear that Tc would increase continuously (from 2 K to 5.5 K) as we approach this boundary (x = 0.20), if no ordering would take place - as its is approximately the case in CsxWO3. This behaviour is reminiscent of the tetragonal tungsten bronze NaxWO3 and asks the same question : what mechanism is responsible for this large increase of Tc despite the considerable associated reduction of the electron density of state ? By reviewing the other available data on these bronzes we conclude that the theoretical models which are able to answer this question are probably those where the instability of the lattice plays a major role and, particularly, the model which call upon local structural excitations (LSE), associated with the missing alkali atoms.Comment: To be published in Physical Review

Evidence of coexistence of change of caged dynamics at Tg and the dynamic transition at Td in solvated proteins

Mossbauer spectroscopy and neutron scattering measurements on proteins embedded in solvents including water and aqueous mixtures have emphasized the observation of the distinctive temperature dependence of the atomic mean square displacements, , commonly referred to as the dynamic transition at some temperature Td. At low temperatures, increases slowly, but it assume stronger temperature dependence after crossing Td, which depends on the time/frequency resolution of the spectrometer. Various authors have made connection of the dynamics of solvated proteins including the dynamic transition to that of glass-forming substances. Notwithstanding, no connection is made to the similar change of temperature dependence of obtained by quasielastic neutron scattering when crossing the glass transition temperature Tg, generally observed in inorganic, organic and polymeric glass-formers. Evidences are presented to show that such change of the temperature dependence of from neutron scattering at Tg is present in hydrated or solvated proteins, as well as in the solvents used unsurprisingly since the latter is just another organic glass-formers. The obtained by neutron scattering at not so low temperatures has contributions from the dissipation of molecules while caged by the anharmonic intermolecular potential at times before dissolution of cages by the onset of the Johari-Goldstein beta-relaxation. The universal change of at Tg of glass-formers had been rationalized by sensitivity to change in volume and entropy of the beta-relaxation, which is passed onto the dissipation of the caged molecules and its contribution to . The same rationalization applies to hydrated and solvated proteins for the observed change of at Tg.Comment: 28 pages, 10 figures, 1 Tabl

Broadband Dielectric Spectroscopy on Glass-Forming Propylene Carbonate

Dielectric spectroscopy covering more than 18 decades of frequency has been performed on propylene carbonate in its liquid and supercooled-liquid state. Using quasi-optic submillimeter and far-infrared spectroscopy the dielectric response was investigated up to frequencies well into the microscopic regime. We discuss the alpha-process whose characteristic timescale is observed over 14 decades of frequency and the excess wing showing up at frequencies some three decades above the peak frequency. Special attention is given to the high-frequency response of the dielectric loss in the crossover regime between alpha-peak and boson-peak. Similar to our previous results in other glass forming materials we find evidence for additional processes in the crossover regime. However, significant differences concerning the spectral form at high frequencies are found. We compare our results to the susceptibilities obtained from light scattering and to the predictions of various models of the glass transition.Comment: 13 pages, 9 figures, submitted to Phys. Rev.