MANET Routing with Provably Low Complexity Through Constant Density Clustering and Route Request Broadcast

As mobile ad hoc networks (MANETs) are emerging as important components in critical and large-scale applications, it is crucial to develop MANET routing mechanisms with provably low complexity. In this paper, we give a tutorial overview of the efficient use of elementary node clustering and route request broadcast mechanisms for low-complexity MANET routing. We explain these mechanisms with illustrative examples and discuss their theoretical performance characteristics. We demonstrate that node clustering with constant density and route request broadcasting with a doubling radius technique over the network of cluster leaders can be employed for MANET routing with theoretically proven low complexity. Moreover, we contrast these efficient elementary clustering and route request broadcast mechanisms with clustering and route information accumulation mechanisms in the widely studied AODV and DSR routing protocols and discuss the implications of these various mechanisms for scalable MANET routing.     

Magnetic dilution in the geometrically frustrated SrCr(9p)Ga(12-9p)O19 and the role of local dynamics: A muon spin relaxation study

We investigate the spin dynamics of SrCr(9p)Ga(12-9p)O19 for p below and above the percolation threshold p(c) using muon spin relaxation. Our major findings are as follows: (i) At T-->0 the relaxation rate is T independent and approximately p(3), (ii) the slowing down of spin fluctuation is activated with an energy U, which is also a linear function of p(3) and lim U as p-->0 = 8 K; this energy scale could stem only from a single ion anisotropy, and (iii) the p dependence of the dynamical properties is identical below and above p(c), indicating that they are controlled by local excitation.     

An Adaptive Interacting Wang–Landau Algorithm for Automatic Density Exploration

While statisticians are well-accustomed to performing exploratory analysis in the modeling stage of an analysis, the notion of conducting preliminary general-purpose exploratory analysis in the Monte Carlo stage (or more generally, the model-fitting stage) of an analysis is an area that we feel deserves much further attention. Toward this aim, this article proposes a general-purpose algorithm for automatic density exploration. The proposed exploration algorithm combines and expands upon components from various adaptive Markov chain Monte Carlo methods, with the Wang–Landau algorithm at its heart. Additionally, the algorithm is run on interacting parallel chains—a feature that both decreases computational cost as well as stabilizes the algorithm, improving its ability to explore the density. Performance of this new parallel adaptive Wang–Landau algorithm is studied in several applications. Through a Bayesian variable selection example, we demonstrate the convergence gains obtained with interacting chains. The ability of the algorithm’s adaptive proposal to induce mode-jumping is illustrated through a Bayesian mixture modeling application. Last, through a two-dimensional Ising model, the authors demonstrate the ability of the algorithm to overcome the high correlations encountered in spatial models. Supplemental materials are available online.     

A nonstationary model of newborn EEG

The detection of seizure in the newborn is a critical aspect of neurological research. Current automatic detection techniques are difficult to assess due to the problems associated with acquiring and labelling newborn electroencephalogram (EEG) data. A realistic model for newborn EEG would allow confident development, assessment and comparison of these detection techniques. This paper presents a model for newborn EEG that accounts for its self-similar and nonstationary nature. The model consists of background and seizure submodels. The newborn EEG background model is based on the short-time power spectrum with a time-varying power law. The relationship between the fractal dimension and the power law of a power spectrum is utilized for accurate estimation of the short-time power law exponent. The newborn EEG seizure model is based on a well-known time-frequency signal model. This model addresses all significant time-frequency characteristics of newborn EEG seizure which include; multiple components or harmonics, piecewise linear instantaneous frequency laws and harmonic amplitude modulation. Estimates of the parameters of both models are shown to be random and are modelled using the data from a total of 500 background epochs and 204 seizure epochs. The newborn EEG background and seizure models are validated against real newborn EEG data using the correlation coefficient. The results show that the output of the proposed models have a higher correlation with real newborn EEG than currently accepted models (a 10% and 38% improvement for background and seizure models, respectively).     

As Nice as π: Aromatic Reactions Activated by π-Coordination to Transition Metals

π-Coordination of aromatic molecules to metals dramatically alters their reactivity. For example, coordinated carbons become more electrophilic and C−H bonds of coordinated rings become more acidic. For many years, this change in reactivity has been used to trigger reactions that would not take place for uncoordinated arenes, however, there has been a recent resurgence in use of this technique, in part due to the development of catalytic reactions in which π-coordination is transient. In this Minireview, we describe the key reaction chemistry of arenes coordinated to a range of transition metals, including stereoselective reactions and industrially relevant syntheses. We also summarise outstanding examples of catalytic processes. Finally, we give perspectives on the future direction of the field, with respect to both reactions that are stoichiometric in activating metals and those employing catalytic metal.     

Spectroscopic characterization of novel polycyclic aromatic polymers

A series of novel polyphenylenevinylene (PPV) derivative polymers were studied by absorption and photoluminescence spectroscopies. The effect of the sequential introduction of polycyclic aromatic ring substituents into the delocalized backbone was examined with relation to hypsochromatic and bathochromatic shifting. While the replacement of the phenyl units by naphthyl units results in a substantial hypsochromic shift of both the absorption and emission spectra, their subsequent substitution by anthryl units results in a bathochromic shift. The system is modeled according to, and is found to be consistent with, a previous study of donor-acceptor polyenes of varying length. The electronic structure of the backbone is found to be a balance between that of the high electron affinity polycyclic ring system and the contribution to conjugation across the linking vinyl unit. The model is adapted based on electron affinities of the constituent units, and a clear structure-property relationship for the absorption and emission properties of the system is elucidated. The Stokes shift is examined and is seen to be well-correlated with the vinyl contribution to the electron affinity total (EAtotal). The trends observed in the optical properties of the polymeric system are supported by Raman spectroscopy, whereby the spectral signature of the connecting vinyl bond is seen to soften in a fashion which is correlated with the modeled electron affinity parameters.     

Profiling mechanisms of alkane hydroxylase activity in vivo using the diagnostic substrate norcarane

Mechanistically informative chemical probes are used to characterize the activity of functional alkane hydroxylases in whole cells. Norcarane is a substrate used to reveal the lifetime of radical intermediates formed during alkane oxidation. Results from oxidations of this probe with organisms that contain the two most prevalent medium-chain-length alkane-oxidizing metalloenzymes, alkane omega-monooxygenase (AlkB) and cytochrome P450 (CYP), are reported. The results--radical lifetimes of 1-7 ns for AlkB and less than 100 ps for CYP--indicate that these two classes of enzymes are mechanistically distinguishable and that whole-cell mechanistic assays can identify the active hydroxylase. The oxidation of norcarane by several recently isolated strains (Hydrocarboniphaga effusa AP103, rJ4, and rJ5, whose alkane-oxidizing enzymes have not yet been identified) is also reported. Radical lifetimes of 1-3 ns are observed, consistent with these organisms containing an AlkB-like enzyme and inconsistent with their employing a CYP-like enzyme for growth on hydrocarbons.     

Enantioselective chemisorption of propylene oxide on a 2-butanol modified Pd(111) surface: the role of hydrogen-bonding interactions

The enantioselective chemisorption of R- and S-propylene oxide has been measured either on clean Pd(111) that has been exposed to S-2-butanol at various temperatures to vary the proportion of 2-butanol and 2-butoxide species or by adsorbing S-2-butanol on oxygen-covered Pd(111) to form exclusively 2-butoxide. The results reveal that enantioselective chemisorption is only found when 2-butanol is present on the surface. This is ascribed to enantiospecific hydrogen-bonding interactions between 2-butanol and propylene oxide. Measurements of the variation in enantiospecificity with 2-butanol exposure suggest that propylene oxide can interact either with a single adsorbed 2-butanol molecule or, at higher coverages, with two adsorbed 2-butanol species to form enantioselective sites.     

Fingerprint vibrational spectra of protonated methyl esters of amino acids in the gas phase

Infrared spectra of the protonated monomers of glycine, alanine, valine, and leucine methyl esters are presented. These protonated species are generated in the gas phase via matrix assisted laser desorption ionization (MALDI) within the cell of a Fourier transform ion cyclotron resonance spectrometer (FTICR) where they are subsequently mass selected as the only species trapped in the FTICR cell. Alternatively, they have also been generated by electrospray ionization and transferred to a Paul ion-trap mass spectrometer where they are similarly isolated. In both cases IR spectra are then derived from the frequency dependence of the infrared multiple photon dissociation (IRMPD) in the mid-infrared region (1000-2200 cm(-1)), using the free electron laser facility Centre de Laser Infrarouge d'Orsay (CLIO). IR bands are assigned by comparison with the calculated vibrational spectra of the lowest energy isomers using density functional theory (DFT) calculations. There is in general good agreement between experimental IRMPD spectra and calculated IR absorption spectra for the lowest energy conformer which provides evidence for conformational preferences. The two different approaches to ion generation and trapping yield IRMPD spectra that are in excellent agreement.     

Functional and mechanistic analyses of biomimetic aminoacyl transfer reactions in de novo designed coiled coil peptides via rational active site engineering

Ribosomes and nonribosomal peptide synthetases (NRPSs) carry out instructed peptide synthesis through a series of directed intermodular aminoacyl transfer reactions. We recently reported the design of coiled-coil assemblies that could functionally mimic the elementary aminoacyl loading and intermodular aminoacyl transfer steps of NRPSs. These peptides were designed initially to accelerate aminoacyl transfer mainly through catalysis by approximation by closely juxtaposing four active site moieties, two each from adjacent noncovalently associated helical modules. In our designs peptide self-assembly positions a cysteine residue that is used to covalently capture substrates from solution via transthiolesterification (substrate loading step to generate the aminoacyl donor site) adjacent to an aminoacyl acceptor site provided by a covalently tethered amino acid or modeled by the epsilon-amine of an active site lysine. However, through systematic functional analyses of 48 rationally designed peptide sequences, we have now determined that the substrate loading and intermodular aminoacyl transfer steps can be significantly influenced (up to approximately 103-fold) by engineering changes in the active site microenvironment through amino acid substitutions and variations in the inter-residue distances and geometry. Mechanistic studies based on 15N NMR and kinetic analysis further indicate that certain active site constellations furnish an unexpectedly large pK(a) depression (1.5 pH units) of the aminoacyl-acceptor moiety, helping to explain the observed high rates of aminoacyl transfer in those constructs. Taken together, our studies demonstrate the feasibility of engineering efficient de novo peptide sequences possessing active sites and functions reminiscent of those in natural enzymes.