Semi-supervised prediction of protein interaction sentences exploiting semantically encoded metrics

Protein-protein interaction (PPI) identification is an integral component of many biomedical research and database curation tools. Automation of this task through classification is one of the key goals of text mining (TM). However, labelled PPI corpora required to train classifiers are generally small. In order to overcome this sparsity in the training data, we propose a novel method of integrating corpora that do not contain relevance judgements. Our approach uses a semantic language model to gather word similarity from a large unlabelled corpus. This additional information is integrated into the sentence classification process using kernel transformations and has a re-weighting effect on the training features that leads to an 8% improvement in F-score over the baseline results. Furthermore, we discover that some words which are generally considered indicative of interactions are actually neutralised by this process

The brightest OH maser in the sky: a flare of emission in W75 N

A flare of maser radio emission in the OH-line 1665 MHz has been discovered in the star forming region W75 N in 2003, with the flux density of about 1000 Jy. At the time it was the strongest OH maser detected during the whole history of observations since the discovery of cosmic masers in 1965. The flare emission is linearly polarized with a degree of polarization near 100%. A weaker flare with a flux of 145 Jy was observed in this source in 2000 - 2001, which was probably a precursor of the powerful flare. Intensity of two other spectral features has decreased after beginning of the flare. Such variation of the intensity of maser condensation emission (increasing of one and decreasing of the other) can be explained by passing of the magneto hydrodynamic shock across regions of enhanced gas concentration.Comment: 9 pages with 2 figures, accepted for publication in Astronomy Letter

Different Evolutionary Stages in the Massive Star Forming Region S255 Complex

To understand evolutionary and environmental effects during the formation of high-mass stars, we observed three regions of massive star formation at different evolutionary stages that reside in the same natal molecular cloud. Methods. The three regions S255IR, S255N and S255S were observed at 1.3 mm with the Submillimeter Array (SMA) and followup short spacing information was obtained with the IRAM 30m telescope. Near infrared (NIR) H + K-band spectra and continuum observations were taken for S255IR with VLT-SINFONI to study the different stellar populations in this region. The combination of millimeter (mm) and near infrared data allow us to characterize different stellar populations within the young forming cluster in detail. While we find multiple mm continuum sources toward all regions, their outflow, disk and chemical properties vary considerably. The most evolved source S255IR exhibits a collimated bipolar outflow visible in CO and H2 emission, the outflows from the youngest region S255S are still small and rather confined in the regions of the mm continuum peaks. Also the chemistry toward S255IR is most evolved exhibiting strong emission from complex molecules, while much fewer molecular lines are detected in S255N, and in S255S we detect only CO isotopologues and SO lines. Also, rotational structures are found toward S255N and S255IR. Furthermore, a comparison of the NIR SINFONI and mm data from S255IR clearly reveal two different (proto) stellar populations with an estimated age difference of approximately 1 Myr. A multi-wavelength spectroscopy and mapping study reveals different evolutionary phases of the star formation regions. We propose the triggered outside-in collapse star formation scenario for the bigger picture and the fragmentation scenario for S255IR.Comment: 23 pages,25 figures, accepted by A&

Site testing for submillimetre astronomy at Dome C, Antarctica

Over the past few years a major effort has been put into the exploration of potential sites for the deployment of submillimetre astronomical facilities. Amongst the most important sites are Dome C and Dome A on the Antarctic Plateau, and the Chajnantor area in Chile. In this context, we report on measurements of the sky opacity at 200 um over a period of three years at the French-Italian station, Concordia, at Dome C, Antarctica. We also present some solutions to the challenges of operating in the harsh polar environ- ment. Dome C offers exceptional conditions in terms of absolute atmospheric transmission and stability for submillimetre astron- omy. Over the austral winter the PWV exhibits long periods during which it is stable and at a very low level (0.1 to 0.3 mm). Higher values (0.2 to 0.8 mm) of PWV are observed during the short summer period. Based on observations over three years, a transmission of around 50% at 350 um is achieved for 75% of the time. The 200-um window opens with a typical transmission of 10% to 15% for 25% of the time. Dome C is one of the best accessible sites on Earth for submillimetre astronomy. Observations at 350 or 450 {\mu}m are possible all year round, and the 200-um window opens long enough and with a sufficient transparency to be useful. Although the polar environment severely constrains hardware design, a permanent observatory with appropriate technical capabilities is feasible. Because of the very good astronomical conditions, high angular resolution and time series (multi-year) observations at Dome C with a medium size single dish telescope would enable unique studies to be conducted, some of which are not otherwise feasible even from space

The Aquila prestellar core population revealed by Herschel

The origin and possible universality of the stellar initial mass function (IMF) is a major issue in astrophysics. One of the main objectives of the Herschel Gould Belt Survey is to clarify the link between the prestellar core mass function (CMF) and the IMF. We present and discuss the core mass function derived from Herschel data for the large population of prestellar cores discovered with SPIRE and PACS in the Aquila Rift cloud complex at d ~ 260 pc. We detect a total of 541 starless cores in the entire ~11 deg^2 area of the field imaged at 70-500 micron with SPIRE/PACS. Most of these cores appear to be gravitationally bound, and thus prestellar in nature. Our Herschel results confirm that the shape of the prestellar CMF resembles the stellar IMF, with much higher quality statistics than earlier submillimeter continuum ground-based surveys

A Herschel study of the properties of starless cores in the Polaris Flare dark cloud region using PACS and SPIRE

The Polaris Flare cloud region contains a great deal of extended emission. It is at high declination and high Galactic latitude. It was previously seen strongly in IRAS Cirrus emission at 100 microns. We have detected it with both PACS and SPIRE on Herschel. We see filamentary and low-level structure. We identify the five densest cores within this structure. We present the results of a temperature, mass and density analysis of these cores. We compare their observed masses to their virial masses, and see that in all cases the observed masses lie close to the lower end of the range of estimated virial masses. Therefore, we cannot say whether they are gravitationally bound prestellar cores. Nevertheless, these are the best candidates to be potentialprestellar cores in the Polaris cloud region.Comment: 5 pages, 2 figures, accepted by A&

The spine of the swan: A Herschel study of the DR21 ridge and filaments in Cygnus X

In order to characterise the cloud structures responsible for the formation of high-mass stars, we present Herschel observations of the DR21 environment. Maps of the column density and dust temperature unveil the structure of the DR21 ridge and several connected filaments. The ridge has column densities larger than 1e23/cm^2 over a region of 2.3 pc^2. It shows substructured column density profiles and branching into two major filaments in the north. The masses in the studied filaments range between 130 and 1400 Msun whereas the mass in the ridge is 15000 Msun. The accretion of these filaments onto the DR21 ridge, suggested by a previous molecular line study, could provide a continuous mass inflow to the ridge. In contrast to the striations seen in e.g., the Taurus region, these filaments are gravitationally unstable and form cores and protostars. These cores formed in the filaments potentially fall into the ridge. Both inflow and collisions of cores could be important to drive the observed high-mass star formation. The evolutionary gradient of star formation running from DR21 in the south to the northern branching is traced by decreasing dust temperature. This evolution and the ridge structure can be explained by two main filamentary components of the ridge that merged first in the south.Comment: 8 pages, 5 figures, accepted for publication as a Letter in Astronomy and Astrophysic

The M16 molecular complex under the influence of NGC6611. Herschel's perspective of the heating effect on the Eagle Nebula

We present Herschel images from the HOBYS key program of the Eagle Nebula (M16) in the far-infrared and sub-millimetre, using the PACS and SPIRE cameras at 70{\mu}m, 160{\mu}m, 250{\mu}m, 350{\mu}m, 500{\mu}m. M16, home to the Pillars of Creation, is largely under the influence of the nearby NGC6611 high-mass star cluster. The Herschel images reveal a clear dust temperature gradient running away from the centre of the cavity carved by the OB cluster. We investigate the heating effect of NGC6611 on the entire M16 star-forming complex seen by Herschel including the diffuse cloud environment and the dense filamentary structures identified in this region. In addition, we interpret the three-dimensional geometry of M16 with respect to the nebula, its surrounding environment, and the NGC6611 cavity. The dust temperature and column density maps reveal a prominent eastern filament running north-south and away from the high-mass star-forming central region and the NGC6611 cluster, as well as a northern filament which extends around and away from the cluster. The dust temperature in each of these filaments decreases with increasing distance from the NGC6611 cluster, indicating a heating penetration depth of \sim 10 pc in each direction in 3 - 6 \times 10^{22} cm-2 column density filaments. We show that in high-mass star-forming regions OB clusters impact the temperature of future star-forming sites, modifying the initial conditions for collapse and effecting the evolutionary criteria of protostars developed from spectral energy distributions. Possible scenarios for the origin of the morphology seen in this region are discussed, including a western equivalent to the eastern filament, which was destroyed by the creation of the OB cluster and its subsequent winds and radiation.Comment: 12 pages, including 3 appendix, 9 figures, accepted by A&

A chemical survey of exoplanets with ARIEL

Thousands of exoplanets have now been discovered with a huge range of masses, sizes and orbits: from rocky Earth-like planets to large gas giants grazing the surface of their host star. However, the essential nature of these exoplanets remains largely mysterious: there is no known, discernible pattern linking the presence, size, or orbital parameters of a planet to the nature of its parent star. We have little idea whether the chemistry of a planet is linked to its formation environment, or whether the type of host star drives the physics and chemistry of the planet’s birth, and evolution. ARIEL was conceived to observe a large number (~1000) of transiting planets for statistical understanding, including gas giants, Neptunes, super-Earths and Earth-size planets around a range of host star types using transit spectroscopy in the 1.25–7.8 μm spectral range and multiple narrow-band photometry in the optical. ARIEL will focus on warm and hot planets to take advantage of their well-mixed atmospheres which should show minimal condensation and sequestration of high-Z materials compared to their colder Solar System siblings. Said warm and hot atmospheres are expected to be more representative of the planetary bulk composition. Observations of these warm/hot exoplanets, and in particular of their elemental composition (especially C, O, N, S, Si), will allow the understanding of the early stages of planetary and atmospheric formation during the nebular phase and the following few million years. ARIEL will thus provide a representative picture of the chemical nature of the exoplanets and relate this directly to the type and chemical environment of the host star. ARIEL is designed as a dedicated survey mission for combined-light spectroscopy, capable of observing a large and well-defined planet sample within its 4-year mission lifetime. Transit, eclipse and phase-curve spectroscopy methods, whereby the signal from the star and planet are differentiated using knowledge of the planetary ephemerides, allow us to measure atmospheric signals from the planet at levels of 10–100 part per million (ppm) relative to the star and, given the bright nature of targets, also allows more sophisticated techniques, such as eclipse mapping, to give a deeper insight into the nature of the atmosphere. These types of observations require a stable payload and satellite platform with broad, instantaneous wavelength coverage to detect many molecular species, probe the thermal structure, identify clouds and monitor the stellar activity. The wavelength range proposed covers all the expected major atmospheric gases from e.g. H2O, CO2, CH4 NH3, HCN, H2S through to the more exotic metallic compounds, such as TiO, VO, and condensed species. Simulations of ARIEL performance in conducting exoplanet surveys have been performed – using conservative estimates of mission performance and a full model of all significant noise sources in the measurement – using a list of potential ARIEL targets that incorporates the latest available exoplanet statistics. The conclusion at the end of the Phase A study, is that ARIEL – in line with the stated mission objectives – will be able to observe about 1000 exoplanets depending on the details of the adopted survey strategy, thus confirming the feasibility of the main science objectives.Peer reviewedFinal Published versio