Improving the structure MCMC sampler for Bayesian networks by introducing a new edge reversal move

Applications of Bayesian networks in systems biology are computationally demanding due to the large number of model parameters. Conventional MCMC schemes based on proposal moves in structure space tend to be too slow in mixing and convergence, and have recently been superseded by proposal moves in the space of node orders. A disadvantage of the latter approach is the intrinsic inability to specify the prior probability on network structures explicitly. The relative paucity of different experimental conditions in contemporary systems biology implies a strong influence of the prior probability on the posterior probability and, hence, the outcome of inference. Consequently, the paradigm of performing MCMC proposal moves in order rather than structure space is not entirely satisfactory. In the present article, we propose a new and more extensive edge reversal move in the original structure space, and we show that this significantly improves the convergence of the classical structure MCMC scheme.     

Result Merging Technique for Answering XPath Query over XSLT Transformed Data

Caching stores the results of previously answered queries in order to answer succeeding queries faster by reusing these results. We propose two different approaches for using caches of XSLT transformed XML data in order to answer queries. The first approach checks whether or not a current query Q can be directly answered from the result of a previously answered query Qi stored in the cache. The new query is otherwise submitted to the source over the network, the answer of the query is determined, transmitted back to the client, and stored in the cache. The second approach determines only the intersection Q−Qi and integrates the result of Q−-Qi into the previous results in the cache, which requires applying a numbering scheme for the output of the XSLT stylesheet. We show by experimental results that the second approach can significantly speed up the answering time in comparison to the first approach, but is not significantly slower in few worst cases than the second approach.     

Automated processing for map generalization using web services

In map generalization various operators are applied to the features of a map in order to maintain and improve the legibility of the map after the scale has been changed. These operators must be applied in the proper sequence and the quality of the results must be continuously evaluated. Cartographic constraints can be used to define the conditions that have to be met in order to make a map legible and compliant to the user needs. The combinatorial optimization approaches shown in this paper use cartographic constraints to control and restrict the selection and application of a variety of different independent generalization operators into an optimal sequence. Different optimization techniques including hill climbing, simulated annealing and genetic deep search are presented and evaluated experimentally by the example of the generalization of buildings in blocks. All algorithms used in this paper have been implemented in a web services framework. This allows the use of distributed and parallel processing in order to speed up the search for optimized generalization operator sequences.

Investigation of Ablation Efficiency of Stainless Steel Using Pulsed Lasers in Burst Mode

Due to its high corrosion resistance and mechanical properties, stainless steel is commonly used in various industrial applications. Although different types of stainless steel are similar in their chemical composition, they can differ significantly in their thermal diffusivity. This property is relevant in the ability of a material to conduct heat and thus, in laser processing. In this frame, this study compares the ablation efficiency and characteristics of polished stainless steel samples of the alloys AISI 304, AISI 420, and AISI 316Ti. They are irradiated with single ultrashort pulses having pulse durations between 250 fs and 10 ps as well as using GHz burst modii. The goal is to investigate the differences in both the ablation threshold and the ablation rate to improve the ablation efficiency. The results show that shorter pulse durations lead to a more efficient ablation process. On the other hand, GHz bursts are found to be, in general, less efficient. In addition, there is a significant difference in the surface morphology depending on the process parameters. The differences in the thermal diffusivity do not significantly influence the ablation threshold fluence but surface morphology and the ablation rate.     

The invisible profession

The job of a manager continues to be one of achieving outcomes through other people. However, in the current work environment, managers are finding that while their scope of responsibility is expanding, the traditional power base used to excourage high performance is shrinking. There are limited rewards a manager can use to gain commitment from their staff. Even if some of those rewards are available, many of the new employees do not see them as motivators. Employees come to the workplace with a different set of expectations. There seems to be a mismatch between the traditional management approach to getting the best from the worker and what the worker wants from their manager. In as much as the workplace and the worker are changing so too must manager's approach to "getting the job done."     

Evolution of the trappin multigene family in the Suidae

The purpose of the study was to examine the effects of manipulating lung volume (LV) on phonatory and articulatory kinematic behavior during sentence production in healthy adults. Five men and five women repeated the sentence "I sell a sapapple again" under five LV conditions. These included (1) speaking normally, (2) speaking after exhaling most of the air from the lungs, (3) speaking at end expiratory level (EEL), (4) speaking after a maximal inhalation, and (5) speaking after a maximal inhalation while attempting to maintain as normal a mode of speech as possible. From a multichannel recording, measures were made of LV, sound pressure level (SPL), fundamental frequency (F0) and semitone standard deviation (STSD), and upper and lower lip displacements and peak velocities. When compared with the reference condition, the sentence was spoken significantly more quickly at the lowest LV. SPL increased significantly for the high LV condition, as did the women's F0 and STSD. Upper lip displacements and peak velocities generally decreased for LVs other than the reference condition. Lower lip movements showed inconsistent changes as a function of LV. Adjustments to the LV for speech led to SPL and F0 changes consistent with a coordinated control of the respiratory system and the larynx. However, less consistent effects were observed in the articulatory kinematic measures, possibly because of a less direct biomechanical and neural control linkage between respiratory and articulatory structures.     

Solid-state 2H NMR study of methyl-d3-cobalamin

A solid-state 2H NMR study of methyl-d3-cobalamin has been performed as a function of temperature to provide information concerning the character and energetics of the motion performed by this unique bioorganometallic methyl group. Analysis of the 2H NMR line shape indicates that the methyl group undergoes rapid three-fold rotation, and that the Co-C-2H angle lies between 105.9 and 109.5 degrees. Determination of the spin-lattice relaxation times T1 shows that the relaxation is anisotropic, consistent with a "jumping" motion of the methyl group rather than rotational diffusion. This also provides the activation energy to methyl jumps as 8.3 +/- 1.3 kJ/mol. It is proposed that this energetic barrier may be a useful probe of changes in the electronic character of the Co-C bond that accompany the biological role of this molecule in such enzymes as methionine synthase.     

A Shock Tube Study of the Reactions of H Atoms with COS,CS2, and H2S

Reactions of H atoms with COS, CS₂, and H₂S were studied behind reflected shock waves at temperatures between 1170 K and 1830 K and pressures around 1.0 bar by applying atomic resonance absorption spectroscopy (ARAS) for time-resolved measurements of H atoms at L_α. The thermal decomposition of a few ppm ethyl iodide (C₂H₅I) was used as a H-atom source. In the presence of a large excess of the molecular reactant COS, CS₂, or H₂S, a consumption of H was observed which follows a pseudo first-order rate law. Rate coefficients for the reactions: were determined to be: k₁ = 2.4 × 10¹⁴exp(–3415 K/T) cm³mol⁻¹s⁻¹ k₂ = 1.4 × 10¹⁵exp(–9250 K/T) cm³mol⁻¹s⁻¹ k₃ = 2.5 × 10¹⁴exp(–2890 K/T) cm³mol⁻¹s⁻¹