Nano-chemistry and scanning probe nanolithographies

The development of nanometer-scale lithographies is the focus of an intense research activity because progress on nanotechnology depends on the capability to fabricate, position and interconnect nanometer-scale structures. The unique imaging and manipulation properties of atomic force microscopes have prompted the emergence of several scanning probe-based nanolithographies. In this tutorial review we present the most promising probe-based nanolithographies that are based on the spatial confinement of a chemical reaction within a nanometer-size region of the sample surface. The potential of local chemical nanolithography in nanometer-scale science and technology is illustrated by describing a range of applications such as the fabrication of conjugated molecular wires, optical microlenses, complex quantum devices or tailored chemical surfaces for controlling biorecognition processes.The authors would like to thank Fabio Biscarini for providing the much needed input to write the manuscript and Marta Tello for her valuable suggestions. This work was financially supported by the MCyT (Spain) (MAT2003-02655) and the European Commission (NAIMO, IP NMP4-CT-2004-500355).Peer reviewe

A trend-preserving bias correction – The ISI-MIP approach

Statistical bias correction is commonly applied within climate impact modelling to correct climate model data for systematic deviations of the simulated historical data from observations. Methods are based on transfer functions generated to map the distribution of the simulated historical data to that of the observations. Those are subsequently applied to correct the future projections. Here, we present the bias correction method that was developed within ISI-MIP, the first Inter-Sectoral Impact Model Intercomparison Project. ISI-MIP is designed to synthesise impact projections in the agriculture, water, biome, health, and infrastructure sectors at different levels of global warming. Bias-corrected climate data that are used as input for the impact simulations could be only provided over land areas. To ensure consistency with the global (land + ocean) temperature information the bias correction method has to preserve the warming signal. Here we present the applied method that preserves the absolute changes in monthly temperature, and relative changes in monthly values of precipitation and the other variables needed for ISI-MIP. The proposed methodology represents a modification of the transfer function approach applied in the Water Model Intercomparison Project (Water-MIP). Correction of the monthly mean is followed by correction of the daily variability about the monthly mean. Besides the general idea and technical details of the ISI-MIP method, we show and discuss the potential and limitations of the applied bias correction. In particular, while the trend and the long-term mean are well represented, limitations with regards to the adjustment of the variability persist which may affect, e.g. small scale features or extremes

Regulation of Star Formation Rates in Multiphase Galactic Disks: a Thermal/Dynamical Equilibrium Model

We develop a model for regulation of galactic star formation rates Sigma_SFR in disk galaxies, in which ISM heating by stellar UV plays a key role. By requiring simultaneous thermal and (vertical) dynamical equilibrium in the diffuse gas, and star formation at a rate proportional to the mass of the self-gravitating component, we obtain a prediction for Sigma_SFR as a function of the total gaseous surface density Sigma and the density of stars + dark matter, rho_sd. The physical basis of this relationship is that thermal pressure in the diffuse ISM, which is proportional to the UV heating rate and therefore to Sigma_SFR, must adjust to match the midplane pressure set by the vertical gravitational field. Our model applies to regions where Sigma < 100 Msun/pc^2. In low-Sigma_SFR (outer-galaxy) regions where diffuse gas dominates, the theory predicts Sigma_SFR \propto Sigma (rho_sd)^1/2. The decrease of thermal equilibrium pressure when Sigma_SFR is low implies, consistent with observations, that star formation can extend (with declining efficiency) to large radii in galaxies, rather than having a sharp cutoff. The main parameters entering our model are the ratio of thermal pressure to total pressure in the diffuse ISM, the fraction of diffuse gas that is in the warm phase, and the star formation timescale in self-gravitating clouds; all of these are (in principle) direct observables. At low surface density, our model depends on the ratio of the mean midplane FUV intensity (or thermal pressure in the diffuse gas) to the star formation rate, which we set based on Solar neighborhood values. We compare our results to recent observations, showing good agreement overall for azimuthally-averaged data in a set of spiral galaxies. For the large flocculent spiral galaxies NGC 7331 and NGC 5055, the correspondence between theory and observation is remarkably close.Comment: 49 pages, 7 figures; accepted by the Ap.

Galaxies in box: A simulated view of the interstellar medium

We review progress in the development of physically realistic three dimensional simulated models of the galaxy.We consider the scales from star forming molecular clouds to the full spiral disc. Models are computed using hydrodynamic (HD) or magnetohydrodynamic (MHD) equations and may include cosmic ray or tracer particles. The range of dynamical scales between the full galaxy structure and the turbulent scales of supernova (SN) explosions and even cloud collapse to form stars, make it impossible with current computing tools and resources to resolve all of these in one model. We therefore consider a hierarchy of models and how they can be related to enhance our understanding of the complete galaxy.Comment: Chapter in Large Scale Magnetic Fields in the Univers

Organic groundwater contamination evaluation and prediction

Adsorption of two organic compounds, Trichloroethylene (TCE) and Pentachlorophenol (PCP), on several Missouri soils were determined. The soils used were of the Coppock, Parsons, Putnam, Grundy and Lebanon series. TCE concentrations were determined by gas chromatography, while PCP concentrations were measured by radio-assay technique. Batch adsorption experiments were conducted using a soil and various organic compound concentrations. It was found that adsorption data for both TCE and PCP fit a Freundlich relationship. TCE and PCP adsorption on Missouri soils decreased with increasing pH. Organic matter in soil was an important parameter in determining the extent of TCE and PCP adsorption. TCE was poorly adsorbed on the soils tested while; PCP adsorption was more strongly adsorbed. This would indicate that TCE would migrate readily with the groundwater, while PCP migration would be somewhat retarded.Project # G852-05 Agreement # 14-08-000

GPI-anchor signal sequence influences PrPC sorting, shedding and signalling, and impacts on different pathomechanistic aspects of prion disease in mice

The cellular prion protein (PrPC) is a cell surface glycoprotein attached to the membrane by a glycosylphosphatidylinositol (GPI)-anchor and plays a critical role in transmissible, neurodegenerative and fatal prion diseases. Alterations in membrane attachment influence PrPC-associated signaling, and the development of prion disease, yet our knowledge of the role of the GPI-anchor in localization, processing, and function of PrPC in vivo is limited We exchanged the PrPC GPI-anchor signal sequence of for that of Thy-1 (PrPCGPIThy-1) in cells and mice. We show that this modifies the GPI-anchor composition, which then lacks sialic acid, and that PrPCGPIThy-1 is preferentially localized in axons and is less prone to proteolytic shedding when compared to PrPC. Interestingly, after prion infection, mice expressing PrPCGPIThy-1 show a significant delay to terminal disease, a decrease of microglia/astrocyte activation, and altered MAPK signaling when compared to wild-type mice. Our results are the first to demonstrate in vivo, that the GPI-anchor signal sequence plays a fundamental role in the GPI-anchor composition, dictating the subcellular localization of a given protein and, in the case of PrPC, influencing the development of prion disease

A distributed multiscale computation of a tightly coupled model using the Multiscale Modeling Language

AbstractNature is observed at all scales; with multiscale modeling, scientists bring together several scales for a holistic analysis of a phenomenon. The models on these different scales may require significant but also heterogeneous computational resources, creating the need for distributed multiscale computing. A particularly demanding type of multiscale models, tightly coupled, brings with it a number of theoretical and practical issues. In this contribution, a tightly coupled model of in-stent restenosis is first theoretically examined for its multiscale merits using the Multiscale Modeling Language (MML); this is aided by a toolchain consisting of MAPPER Memory (MaMe), the Multiscale Application Designer (MAD), and Gridspace Experiment Workbench. It is implemented and executed with the general Multiscale Coupling Library and Environment (MUSCLE). Finally, it is scheduled amongst heterogeneous infrastructures using the QCG-Broker. This marks the first occasion that a tightly coupled application uses distributed multiscale computing in such a general way

Membrane Hsp70 — a novel target for the isolation of circulating tumor cells after epithelial-to-mesenchymal transition

The presence of circulating tumor cells (CTCs) in the peripheral blood is a pre-requisite for progression, invasion, and metastatic spread of cancer. Consequently, the enumeration and molecular characterization of CTCs from the peripheral blood of patients with solid tumors before, during and after treatment serves as a valuable tool for categorizing disease, evaluating prognosis and for predicting and monitoring therapeutic responsiveness. Many of the techniques for isolating CTCs are based on the expression of epithelial cell surface adhesion molecule (EpCAM, CD326) on tumor cells. However, the transition of adherent epithelial cells to migratory mesenchymal cells (epithelial-to-mesenchymal transition, EMT)—an essential element of the metastatic process—is frequently associated with a loss of expression of epithelial cell markers, including EpCAM. A highly relevant proportion of mesenchymal CTCs cannot therefore be isolated using techniques that are based on the “capture” of cells expressing EpCAM. Herein, we provide evidence that a monoclonal antibody (mAb) directed against a membrane-bound form of Hsp70 (mHsp70)—cmHsp70.1—can be used for the isolation of viable CTCs from peripheral blood of tumor patients of different entities in a more quantitative manner. In contrast to EpCAM, the expression of mHsp70 remains stably upregulated on migratory, mesenchymal CTCs, metastases and cells that have been triggered to undergo EMT. Therefore, we propose that approaches for isolating CTCs based on the capture of cells that express mHsp70 using the cmHsp70.1 mAb are superior to those based on EpCAM expression