Using temporal distributions of transient events to characterize cosmological source populations

The brightest events in a time series of cosmological transients obey an observation time dependence which is often overlooked. This dependence can be exploited to probe the global properties of electromagnetic and gravitational wave transients (Howell et al. 2007a, Coward & Burman 2005). We describe a new relation based on a peak flux--observation time distribution and show that it is invariant to the luminosity distribution of the sources (Howell et al. 2007b). Applying this relation, in combination with a new data analysis filter, to \emph{Swift} gamma-ray burst data, we demonstrate that it can constrain their rate density.Comment: published in proceedings of FRONTIERS OF FUNDAMENTAL AND COMPUTATIONAL PHYSICS: 10th International Symposium, AIP,1246,203, (2010

An improved method for estimating source densities using the temporal distribution of Cosmological Transients

It has been shown that the observed temporal distribution of transient events in the cosmos can be used to constrain their rate density. Here we show that the peak flux--observation time relation takes the form of a power law that is invariant to the luminosity distribution of the sources, and that the method can be greatly improved by invoking time reversal invariance and the temporal cosmological principle. We demonstrate how the method can be used to constrain distributions of transient events, by applying it to Swift gamma-ray burst data and show that the peak flux--observation time relation is in good agreement with recent estimates of source parameters. We additionally show that the intrinsic time dependence allows the method to be used as a predictive tool. Within the next year of Swift observation, we find a 50% chance of obtaining a peak flux greater than that of GRB 060017 -- the highest Swift peak flux to date -- and the same probability of detecting a burst with peak flux > 100 photons s^{-1} cm^{-2} within 6 years.Comment: Submitted to ApJ Letter

Edge-based nonlinear diffusion for finite element approximations of convection–diffusion equations and its relation to algebraic flux-correction schemes

The final publication is available at Springer via http://dx.doi.org/10.1007/s00211-016-0808-zFor the case of approximation of convection–diffusion equations using piecewise affine continuous finite elements a new edge-based nonlinear diffusion operator is proposed that makes the scheme satisfy a discrete maximum principle. The diffusion operator is shown to be Lipschitz continuous and linearity preserving. Using these properties we provide a full stability and error analysis, which, in the diffusion dominated regime, shows existence, uniqueness and optimal convergence. Then the algebraic flux correction method is recalled and we show that the present method can be interpreted as an algebraic flux correction method for a particular definition of the flux limiters. The performance of the method is illustrated on some numerical test cases in two space dimensions

Dislocation-mediated growth of bacterial cell walls

Recent experiments have illuminated a remarkable growth mechanism of rod-shaped bacteria: proteins associated with cell wall extension move at constant velocity in circles oriented approximately along the cell circumference (Garner et al., Science (2011), Dominguez-Escobar et al. Science (2011), van Teeffelen et al. PNAS (2011). We view these as dislocations in the partially ordered peptidoglycan structure, activated by glycan strand extension machinery, and study theoretically the dynamics of these interacting defects on the surface of a cylinder. Generation and motion of these interacting defects lead to surprising effects arising from the cylindrical geometry, with important implications for growth. We also discuss how long range elastic interactions and turgor pressure affect the dynamics of the fraction of actively moving dislocations in the bacterial cell wall.Comment: to appear in PNA

The crystal structure of Escherichia coli TdcF, a member of the highly conserved YjgF/YER057c/UK114 family

BACKGROUND: The YjgF/YER057c/UK114 family of proteins is widespread in nature, but has as yet no clearly defined biological role. Members of the family exist as homotrimers and are characterised by intersubunit clefts that are delineated by well-conserved residues; these sites are likely to be of functional significance, yet catalytic activity has never been detected for any member of this family. The gene encoding the TdcF protein of E. coli, a YjgF/YER057c/UK114 family member, resides in an operon that strongly suggests a role in the metabolism of 2-ketobutyrate for this protein. RESULTS: We have determined the crystal structure of E. coli TdcF by molecular replacement to a maximum resolution of 1.6 Å. Structures are also presented of TdcF complexed with a variety of ligands. CONCLUSION: The TdcF structure closely resembles those of all YjgF/YER057c/UK114 family members determined thus far. It has the trimeric quaternary structure and intersubunit cavities characteristic of this family of proteins. We show that TdcF is capable of binding several low molecular weight metabolites bearing a carboxylate group, although the interaction with 2-ketobutyrate appears to be the most well defined. These observations may be indicative of a role for TdcF in sensing this potentially toxic metabolite

Where are the missing gamma ray burst redshifts?

In the redshift range z = 0-1, the gamma ray burst (GRB) redshift distribution should increase rapidly because of increasing differential volume sizes and strong evolution in the star formation rate. This feature is not observed in the Swift redshift distribution and to account for this discrepancy, a dominant bias, independent of the Swift sensitivity, is required. Furthermore, despite rapid localization, about 40-50% of Swift and pre-Swift GRBs do not have a measured redshift. We employ a heuristic technique to extract this redshift bias using 66 GRBs localized by Swift with redshifts determined from absorption or emission spectroscopy. For the Swift and HETE+BeppoSAX redshift distributions, the best model fit to the bias in z < 1 implies that if GRB rate evolution follows the SFR, the bias cancels this rate increase. We find that the same bias is affecting both Swift and HETE+BeppoSAX measurements similarly in z < 1. Using a bias model constrained at a 98% KS probability, we find that 72% of GRBs in z < 2 will not have measurable redshifts and about 55% in z > 2. To achieve this high KS probability requires increasing the GRB rate density in small z compared to the high-z rate. This provides further evidence for a low-luminosity population of GRBs that are observed in only a small volume because of their faintness.Comment: 5 pages, submitted to MNRA

Numerical Computations with H(div)-Finite Elements for the Brinkman Problem

The H(div)-conforming approach for the Brinkman equation is studied numerically, verifying the theoretical a priori and a posteriori analysis in previous work of the authors. Furthermore, the results are extended to cover a non-constant permeability. A hybridization technique for the problem is presented, complete with a convergence analysis and numerical verification. Finally, the numerical convergence studies are complemented with numerical examples of applications to domain decomposition and adaptive mesh refinement.Comment: Minor clarifications, added references. Reordering of some figures. To appear in Computational Geosciences, final article available at http://www.springerlink.co

Shifts of Effective Connectivity within a Language Network during Rhyming and Spelling

This is the published version, also available here: http://dx.doi.org/10.1523/JNEUROSCI.0864-05.2005.We used functional magnetic resonance imaging to examine task-specific modulations of effective connectivity within a left-hemisphere language network during spelling and rhyming judgments on visually presented words. We identified sites showing task-specific activations for rhyming in the lateral temporal cortex (LTC) and for spelling in the intraparietal sulcus (IPS). The inferior frontal gyrus (IFG) and fusiform gyrus were engaged by both tasks. Dynamic causal modeling showed that each task preferentially strengthened modulatory influences converging on its task-specific site (LTC for rhyming, IPS for spelling). These remarkably selective and symmetrical findings demonstrate that the nature of the behavioral task dynamically shifts the locus of integration (or convergence) to the network component specialized for that task. Furthermore, they suggest that the role of the task-selective areas is to provide a differential synthesis of incoming information rather than providing differential control signals influencing the activity of other network components. Our findings also showed that switching tasks led to changes in the target area influenced by the IFG, suggesting that the IFG may play a pivotal role in setting the cognitive context for each task. We propose that task-dependent shifts in effective connectivity are likely to be mediated through top-down modulations from the IFG to the task-selective regions in a way that differentially enhances their sensitivity to incoming word-form information