Enhancing integrated environmental modelling by designing resource-oriented interfaces

Integrated environmental modelling is gaining momentum for addressing grand scientific challenges such as monitoring the environment for change detection and forecasting environmental conditions along with the consequences for society. Such challenges can only be addressed by a multi-disciplinary approach, in which socio-economic, geospatial, and environmental information becomes inter-connected. However, existing solutions cannot be seamlessly integrated and current interaction paradigms prevent mainstream usage of the existing technology. In particular, it is still difficult to access and join harmonized data and processing algorithms that are provided by different environmental information infrastructures. In this paper we take a novel approach for integrated environmental modelling based on the notion of inter-linked resources on the Web. We present design practices for creating resource-oriented interfaces, driven by an interaction protocol built on the combination of valid linkages to enhance resource integration, accompanied by associated recommendations for implementation. The suggested resource-oriented approach provides a solution to the problems identified above, but still requires intense prototyping and experimentation. We discuss the central open issues and present a roadmap for future research

Citizens as Sensors for Crisis Event: Sensor Web Enablement for Volunteered Geographic Information

A set of developments within the field of geosensors is to engage citizens to act as sensors, thus providing so-called Volunteered Geographic Information (VGI). There is a long tradition of non specialists contributing to the collection of geo-referenced information. Furthermore thanks to recent convergence of greater access to broadband connections, the availability of Global Positioning Systems at affordable prices, and more participative forms of interaction on the Web (Web 2.0) vast numbers of individuals are able to create and share geographic information. The potential of up to 6 billion human sensors to monitor the state of the environment, validate global models with local knowledge, contribute to crisis situations awareness and provide information that only humans can capture (e.g. emotions and perceptions like fear of crime) is vast and has yet to be fully exploited. However, integrating VGI into Spatial Data Infrastructures (SDI) is a major challenge, as it is often regarded as insufficiently structured, documented or validated according to scientific standards. Early instances of SDIs used to have limited ability to manage and process geosensor-based data (beyond remotely sensed imagery snapshots), which tend to arrive in continuous streams of real-time information. The current works on standards for Sensor Web Enablement (SWE) aim to fill this gap. This paper shows how such SWE standards can be applied to VGI, thus converting it in a timely, cost-effective and valuable source of information for SDIs. By doing so, we extend previous works describing a workflow for VGI integration into SDI and further advance an initial set of VGI Sensing and event detection techniques. In particular, an example of how such VGI Sensing techniques can support crisis information system is provided.JRC.DDG.H.6-Spatial data infrastructure

Citizen-based sensing of crisis events: sensor web enablement for volunteered geographic information

Thanks to recent convergence of greater access to broadband connections, the availability of Global Positioning Systems in small packages at affordable prices and more participative forms of interaction on the Web (Web 2.0), vast numbers of individuals became able to create and share Volunteered Geographic Information (VGI). The potential of up to six billion persons to monitor the state of the environment, validate global models with local knowledge, contribute to crisis situations awareness, and provide information that only humans can capture is vast and has yet to be fully exploited. Integrating VGI into Spatial Data Infrastructures (SDI) is a major challenge, as it is often regarded as insufficiently structured, documented, or validated according to scientific standards. Early instances of SDIs used to have limited ability to manage and process geosensor-based data (beyond remotely sensed imagery), which tend to arrive in continuous streams of real-time information. The current works on standards for Sensor Web Enablement fill this gap. This paper shows how such standards can be applied to VGI, thus converting it in a timely, cost-effective and valuable source of information for SDIs. By doing so, we extend previous efforts describing a workflow for VGI integration into SDI and further advance an initial set of VGI Sensing and event detection techniques. Examples of how such VGI Sensing techniques can support crisis information system are provided. The presented approach serves central building blocks for a Digital Earth’s nervous system, which is required to develop the next generation of (geospatial) information infrastructures

Analysis of the use of models by the European Commission in its Impact Assessments for the period 2009 - 2014

Impact Assessments (IA)are a key element in the development of policy proposals by the European Commission (EC). They provide evidence for political decision makers on the advantages and disadvantages of possible policy options by assessing their potential impacts. This evidence should be quantified whenever possible, and hence it is of interest to examine to what extent models have been used in IAs. The purpose of this report is to understand how the EC is positioned with respect to external providers as regards modelling contributions to IAs, as well to provide an input into potential future development of the Commission's model portfolio. The results of a statistical analysis for the period 2009-2014 shows that 16 % of the published 512 IAs used models or were predominantly model-based. In terms of absolute numbers, Directorate Generals (DGs) CLIMA, ENER, ENV and MOVE account for more than half (51) of the 91 model-based IAs . Within the model-based IAs, 52% used results exclusively or partially provided by external contractors, while 48% used models run in-house by DG JRC. The Commission uses a wide range of models (91 for the IAs during 2009-2014), roughly 60% of which were used only once. The 24 most frequently-used models represent 70% of all cases in which modelling were used for an IA. Notably 11 of them account for roughly 48%, almost all being run by contractors, mostly in tandem for energy-transport-climate policy scenarios. The most frequently-used model is PRIMES, used in 28 out of 263 cases (11% of the cases), followed by 10 other models which are used exclusively or predominantly with PRIMES in the context of the energy-climate scenarios (GEM-E3, TREMOVE, CAPRI, POLES, G4M, GAINS, GLOBIOM, LUISA, PROMETHEUS and TRANSTOOLS). Frequently-used models for the economic and monetary union are the in-house models QUEST and SYMBOL. The most frequently-used models of DG JRC number about 10 which have been used in 46 cases; these are energy models (GEM-E3 and POLES), followed by environmental models (the LUISA modelling platform and LISFLOOD), the micro-economic model for financial markets SYMBOL, the transport model TRANSTOOLS and the agricultural models belonging to the iMAP platform - CAPRI and AGLINK-COSIMO.JRC.A.2-Work Programm

Naturally acidified habitat selects for ocean acidification–tolerant mussels

Ocean acidification severely affects bivalves, especially their larval stages. Consequently, the fate of this ecologically and economically important group depends on the capacity and rate of evolutionary adaptation to altered ocean carbonate chemistry. We document successful settlement of wild mussel larvae (Mytilus edulis) in a periodically CO2-enriched habitat. The larval fitness of the population originating from the CO2-enriched habitat was compared to the response of a population from a nonenriched habitat in a common garden experiment. The high CO2–adapted population showed higher fitness under elevated Pco2 (partial pressure of CO2) than the non-adapted cohort, demonstrating, for the first time, an evolutionary response of a natural mussel population to ocean acidification. To assess the rate of adaptation, we performed a selection experiment over three generations. CO2 tolerance differed substantially between the families within the F1 generation, and survival was drastically decreased in the highest, yet realistic, Pco2 treatment. Selection of CO2-tolerant F1 animals resulted in higher calcification performance of F2 larvae during early shell formation but did not improve overall survival. Our results thus reveal significant short-term selective responses of traits directly affected by ocean acidification and long-term adaptation potential in a key bivalve species. Because immediate response to selection did not directly translate into increased fitness, multigenerational studies need to take into consideration the multivariate nature of selection acting in natural habitats. Combinations of short-term selection with long-term adaptation in populations from CO2-enriched versus nonenriched natural habitats represent promising approaches for estimating adaptive potential of organisms facing global change

Cell permeable stapled peptide inhibitor of Wnt signaling that targets β-catenin protein‒protein interactions

The Wnt signaling pathway plays a critical role in cell proliferation and differentiation, thus it is often associated with diseases such as cancers. Unfortunately, although attractive, developing anti-cancer strategy targeting Wnt signaling has been challenging given that the most attractive targets are involved in protein-protein interactions (PPIs). Here, we develop a stapled peptide inhibitor that targets the interaction between β-catenin and T cell factor/lymphoid enhancer-binding factor transcription factors, which are crucially involved in Wnt signaling. Our integrative approach combines peptide stapling to optimize proteolytic stability, with lessons learned from cell-penetrating peptide (CPP) design to maximize cellular uptake resulting in NLS-StAx-h, a selective, cell permeable, stapled peptide inhibitor of oncogenic Wnt signaling that efficiently inhibits β-catenin-transcription factor interactions. We expect that this type of integrative strategy that endows stapled peptides with CPP features will be generally useful for developing inhibitors of intracellular PPIs

Which service interfaces fit the model web?

Ponència presentada a The Fourth International Conference on Advanced Geographic Information Systems, Applications, and Services, GEOProcessing 2012, celebrat a València del 30 de gener al 4 de febrer de 2012The Model Web has been proposed as a concept for integrating scientific models in an interoperable and collaborative manner. However, four years after the initial idea was formulated, there is still no stable long term solution. Multiple authors propose Web Service based approaches to model publication and chaining, but current implementations are highly case specific and lack flexibility. This paper discusses the Web Service interfaces, which are required for supporting integrated environmental modeling in a sustainable manner. We explore ways to expose environmental models and their components using Web Service interfaces. Our discussions present work in progress for establishing the Web Services technological grounds for simp lifying information publication and exchange within the Model We b. As a main outcome, this contribution identifies challenges in respect to the required geo- processing and relates them to currently available Web Service standards

Normalizing glycosphingolipids restores function in CD4+ T cells from lupus patients

Patients with the autoimmune rheumatic disease systemic lupus erythematosus (SLE) have multiple defects in lymphocyte signaling and function that contribute to disease pathogenesis. Such defects could be attributed to alterations in metabolic processes, including abnormal control of lipid biosynthesis pathways. Here, we reveal that CD4+ T cells from SLE patients displayed an altered profile of lipid raft–associated glycosphingolipids (GSLs) compared with that of healthy controls. In particular, lactosylceramide, globotriaosylceramide (Gb3), and monosialotetrahexosylganglioside (GM1) levels were markedly increased. Elevated GSLs in SLE patients were associated with increased expression of liver X receptor β (LXRβ), a nuclear receptor that controls cellular lipid metabolism and trafficking and influences acquired immune responses. Stimulation of CD4+ T cells isolated from healthy donors with synthetic and endogenous LXR agonists promoted GSL expression, which was blocked by an LXR antagonist. Increased GSL expression in CD4+ T cells was associated with intracellular accumulation and accelerated trafficking of GSL, reminiscent of cells from patients with glycolipid storage diseases. Inhibition of GSL biosynthesis in vitro with a clinically approved inhibitor (N-butyldeoxynojirimycin) normalized GSL metabolism, corrected CD4+ T cell signaling and functional defects, and decreased anti-dsDNA antibody production by autologous B cells in SLE patients. Our data demonstrate that lipid metabolism defects contribute to SLE pathogenesis and suggest that targeting GSL biosynthesis restores T cell function in SLE

Crystallographic, Optical, and Electronic Properties of the Cs2AgBi1–xInxBr6 Double Perovskite: Understanding the Fundamental Photovoltaic Efficiency Challenges

We present a crystallographic and optoelectronic study of the double perovskite Cs2AgBi1–xInxBr6. From structural characterization we determine that the indium cation shrinks the lattice and shifts the cubic-to-tetragonal phase transition point to lower temperatures. The absorption onset is shifted to shorter wavelengths upon increasing the indium content, leading to wider band gaps, which we rationalize through first-principles band structure calculations. Despite the unfavorable band gap shift, we observe an enhancement in the steady-state photoluminescence intensity, and n-i-p photovoltaic devices present short-circuit current greater than that of neat Cs2AgBiBr6 devices. In order to evaluate the prospects of this material as a solar absorber, we combine accurate absorption measurements with thermodynamic modeling and identify the fundamental limitations of this system. Provided radiative efficiency can be increased and the choice of charge extraction layers are specifically improved, this material could prove to be a useful wide band gap solar absorber

Roadmap on Electronic Structure Codes in the Exascale Era

Electronic structure calculations have been instrumental in providing many important insights into a range of physical and chemical properties of various molecular and solid-state systems. Their importance to various fields, including materials science, chemical sciences, computational chemistry and device physics, is underscored by the large fraction of available public supercomputing resources devoted to these calculations. As we enter the exascale era, exciting new opportunities to increase simulation numbers, sizes, and accuracies present themselves. In order to realize these promises, the community of electronic structure software developers will however first have to tackle a number of challenges pertaining to the efficient use of new architectures that will rely heavily on massive parallelism and hardware accelerators. This roadmap provides a broad overview of the state-of-the-art in electronic structure calculations and of the various new directions being pursued by the community. It covers 14 electronic structure codes, presenting their current status, their development priorities over the next five years, and their plans towards tackling the challenges and leveraging the opportunities presented by the advent of exascale computing.Comment: Submitted as a roadmap article to Modelling and Simulation in Materials Science and Engineering; Address any correspondence to Vikram Gavini ([email protected]) and Danny Perez ([email protected]