Evaluation of peak-picking algorithms for protein mass spectrometry

Peak picking is an early key step in MS data analysis. We compare three commonly used approaches to peak picking and discuss their merits by means of statistical analysis. Methods investigated encompass signal-to-noise ratio, continuous wavelet transform, and a correlation-based approach using a Gaussian template. Functionality of the three methods is illustrated and discussed in a practical context using a mass spectral data set created with MALDI-TOF technology. Sensitivity and specificity are investigated using a manually defined reference set of peaks. As an additional criterion, the robustness of the three methods is assessed by a perturbation analysis and illustrated using ROC curves

Via Hexagons to Squares in Ferrofluids: Experiments on Hysteretic Surface Transformations under Variation of the Normal Magnetic Field

We report on different surface patterns on magnetic liquids following the Rosensweig instability. We compare the bifurcation from the flat surface to a hexagonal array of spikes with the transition to squares at higher fields. From a radioscopic mapping of the surface topography we extract amplitudes and wavelengths. For the hexagon--square transition, which is complex because of coexisting domains, we tailor a set of order parameters like peak--to--peak distance, circularity, angular correlation function and pattern specific amplitudes from Fourier space. These measures enable us to quantify the smooth hysteretic transition. Voronoi diagrams indicate a pinning of the domains. Thus the smoothness of the transition is roughness on a small scale.Comment: 17 pages, 14 figure

Feasibility study of the transonic biplane concept for transport aircraft application

Investigations were conducted to evaluate the feasibility of a transonic biplane consisting of a forward-mounted swept-back lower wing, a rear-mounted swept-forward upper wing, and a vertical fin connecting the wings at their tips. This wing arrangement results in significant reductions in induced drag relative to a monoplane designed with the same span, and it allows for a constant-section fuselage shape while closely matching an ideal area distribution curve for M = 0.95 cruise. However, no significant reductions in ramp weight were achieved for the biplane relative to a monoplane with the same mission capability. Flutter analyses of the biplane revealed both symmetric and antisymmetric instabilities that occur well below the required flutter speed. Further studies will be required to determine if acceptable flutter speeds can be achieved through the elimination of the instabilities by passive means or by active controls. Configurations designed for other missions, especially those with lower Mach numbers and lower dynamic pressures, should be examined since the geometries suitable for those design constraints might avoid the weight penalties and flutter instabilities which prevent exploitation of induced drag benefits for the configuration studied

A Microservice Infrastructure for Distributed Communities of Practice

Non-formal learning in Communities of Practice (CoPs) makes up a significant portion of today’s knowledge gain. However, only little technological support is tailored specifically towards CoPs and their particular strengths and challenges. Even worse, CoPs often do not possess the resources to host or even develop a software ecosystem to support their activities. In this paper, we describe a distributed, microservice-based Web infrastructure for non-formal learning in CoPs. It mitigates the need for central infrastructures, coordination or facilitation and takes into account the constant change of these communities. As a real use case, we implement an inquiry-based learning application on-top of our infrastructure. Our evaluation results indicate the usefulness of this learning application, which shows promise for future work in the domain of community-hosted, microservice-based Web infrastructures for learning outside of formal settings

Spontaneous Symmetry Breaking with Abnormal Number of Nambu-Goldstone Bosons and Kaon Condensate

We describe a class of relativistic models incorporating finite density of matter in which spontaneous breakdown of continuous symmetries leads to a lesser number of Nambu-Goldstone bosons than that required by the Goldstone theorem. This class, in particular, describes the dynamics of the kaon condensate in the color-flavor locked phase of high density QCD. We describe the spectrum of low energy excitations in this dynamics and show that, despite the presence of a condensate and gapless excitations, this system is not a superfluid.Comment: 5 pages, 1 figure, REVTeX. Minor revisions made and 2 new references added. To appear in Phys. Rev. Let

A Millimeter-wave Galactic Plane Survey with the BICEP Polarimeter

In order to study inflationary cosmology and the Milky Way Galaxy's composition and magnetic field structure, Stokes I, Q, and U maps of the Galactic plane covering the Galactic longitude range 260° < ℓ < 340° in three atmospheric transmission windows centered on 100, 150, and 220 GHz are presented. The maps sample an optical depth 1 ≾ AV ≾ 30, and are consistent with previous characterizations of the Galactic millimeter-wave frequency spectrum and the large-scale magnetic field structure permeating the interstellar medium. The polarization angles in all three bands are generally perpendicular to those measured by starlight polarimetry as expected and show changes in the structure of the Galactic magnetic field on the scale of 60°. The frequency spectrum of degree-scale Galactic emission is plotted between 23 and 220 GHz (including WMAP data) and is fit to a two-component (synchrotron and dust) model showing that the higher frequency BICEP data are necessary to tightly constrain the amplitude and spectral index of Galactic dust. Polarized emission is detected over the entire region within two degrees of the Galactic plane, indicating the large-scale magnetic field is oriented parallel to the plane of the Galaxy. A trend of decreasing polarization fraction with increasing total intensity is observed, ruling out the simplest model of a constant Galactic magnetic field orientation along the line of sight in the Galactic plane. A generally increasing trend of polarization fraction with electromagnetic frequency is found, varying from 0.5%-1.5% at frequencies below 50 GHz to 2.5%-3.5% above 90 GHz. The effort to extend the capabilities of BICEP by installing 220 GHz band hardware is described along with analysis of the new band

Pulmonary Hypertension in Patients with Chronic Fibrosing Idiopathic Interstitial Pneumonias

Background Pulmonary hypertension (PH) is a common finding in patients with chronic fibrosing idiopathic interstitial pneumonias (IIP). Little is known about the response to pulmonary vasodilator therapy in this patient population. COMPERA is an international registry that prospectively captures data from patients with various forms of PH receiving pulmonary vasodilator therapies. Methods We retrieved data from COMPERA to compare patient characteristics, treatment patterns, response to therapy and survival in newly diagnosed patients with idiopathic pulmonary arterial hypertension (IPAH) and PH associated with IIP (PH-IIP). Results Compared to patients with IPAH (n = 798), patients with PH-IIP (n = 151) were older and predominantly males. Patients with PH-IIP were treated predominantly with phosphodiesterase-5 inhibitors (88% at entry, 87% after 1 year). From baseline to the first follow-up visit, the median improvement in 6MWD was 30 m in patients with IPAH and 24.5 m in patients with PH-IIP (p = 0.457 for the difference between both groups). Improvements in NYHA functional class were observed in 22.4% and 29.5% of these patients, respectively (p = 0.179 for the difference between both groups). Survival rates were significantly worse in PH-IIP than in IPAH (3-year survival 34.0 versus 68.6%; p<0.001). Total lung capacity, NYHA class IV, and mixed-venous oxygen saturation were independent predictors of survival in patients with PH-IIP. Conclusions Patients with PH-IIP have a dismal prognosis. Our results suggest that pulmonary vasodilator therapy may be associated with short-term functional improvement in some of these patients but it is unclear whether this treatment affects survival

The third year of an integrated crop-livestock-forest system at the AmazonBiome: soybean

The soybean has been widely used within integrated systems, especially in the first stages of development of forestry species when competition for resources such as light, water and nutrients are lesser. Being able to timely cultivate legumes within an integrated system is of ultimate importance since soil characteristics, both physical and chemical, are concurrently improved with income generation

The Herschel-SPIRE instrument and its in-flight performance

The Spectral and Photometric Imaging REceiver (SPIRE), is the Herschel Space Observatory`s submillimetre camera and spectrometer. It contains a three-band imaging photometer operating at 250, 350 and 500 μm, and an imaging Fourier-transform spectrometer (FTS) which covers simultaneously its whole operating range of 194–671 μm (447–1550 GHz). The SPIRE detectors are arrays of feedhorn-coupled bolometers cooled to 0.3 K. The photometer has a field of view of 4´× 8´, observed simultaneously in the three spectral bands. Its main operating mode is scan-mapping, whereby the field of view is scanned across the sky to achieve full spatial sampling and to cover large areas if desired. The spectrometer has an approximately circular field of view with a diameter of 2.6´. The spectral resolution can be adjusted between 1.2 and 25 GHz by changing the stroke length of the FTS scan mirror. Its main operating mode involves a fixed telescope pointing with multiple scans of the FTS mirror to acquire spectral data. For extended source measurements, multiple position offsets are implemented by means of an internal beam steering mirror to achieve the desired spatial sampling and by rastering of the telescope pointing to map areas larger than the field of view. The SPIRE instrument consists of a cold focal plane unit located inside the Herschel cryostat and warm electronics units, located on the spacecraft Service Module, for instrument control and data handling. Science data are transmitted to Earth with no on-board data compression, and processed by automatic pipelines to produce calibrated science products. The in-flight performance of the instrument matches or exceeds predictions based on pre-launch testing and modelling: the photometer sensitivity is comparable to or slightly better than estimated pre-launch, and the spectrometer sensitivity is also better by a factor of 1.5–2