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Scripting for large-scale sequencing based on Hadoop
Full text linkThe large volumes of data generated by modern sequencing experiments present significant challenges in their manipulation and analysis. Traditional approaches are often found to be complicated to scale. We describe our ongoing work on SeqPig, a tool that facilitates the use of the Pig Latin distributed scripting language to manipulate, analyze and query sequencing data applying the advances motivated by the “big data revolution” in data-intensive activities. SeqPig provides access to popular data formats and implements a number of custom sequencing-specific functions. Most importantly, it grants users access to the scalable Hadoop platform from a high level scripting language84-85Pubblicat
Common-offset CRS for advanced imaging in complex geological settings
Full text linkIncreasingly challenging exploration targets with respect to the geological complexity and data quality require more accurate seismic imaging. The common-offset CRS method provides an extension of the CRS technology to such targets as we demonstrate in this case study for complex 2D over thrust data. While both zero- and common-offset CRS stack provide similar noise reduction compared to the conventional PreSTM in areas with relatively simple structure and good coupling, the common-offset results are far superior on very poor data. Moreover, using the CO CRS stack in depth velocity model building can help in event picking and provides a better defined semblance.3744-374
INDIGO
No full textThe INDIGO project aims to research, develop and validate an innovative system integrating the latest advances in Virtual Reality and Simulation in order to homogenise and enhance both the operational preparedness and the management of an actual complex crisis. INDIGO will enable: (a) the 3D interactive and realistic visualisation of the complete crisis environment, including data coming from the field, simulation results, and building interiors; (b) the creation and simulation of different evolving scenarios for planning, training, and anticipating future states and impending developments during operations, and analyse events after the crisis; (c) the simultaneous training of decision makers, crisis managers as well as first responders that will be influenced by the simulated scenario and that will reciprocally influence its evolution; (d) the involvement of multiple participants, thanks to its distributed architecture, while offering a unique pictorial way of sharing and communicating complex knowledge across organisation boundaries. In addition, INDIGO will propose a European emergency symbology reference for 2D/3D maps. This will fill an important gap by offering a common visual reference that can be used across Europe to facilitate the immediate understanding of the situation, thus improving decision making across organisational boundaries. The definition of the functional specifications of the system will be driven by the analysis of the needs of real end-users participating in the project as partners or involved in the User Group. These organisations will test and validate the outcomes of the project with real-world scenarios. By the end of the project a packaged system integrating all the proposed technologies will have been developed and provided to them under two versions for purpose of validation and refinement of needs and specifications. CRS4, together with ISTI-CNR, will concentrate on extending such a framework with the possibility of handling two particularly important data types: extremely massive point clouds, and geo-referenced (three-dimensionalized) photographs. These two particular datatypes are of particular importance to the security domain, since they can be acquired very rapidly and provide both measurable and visually recognizable description of a site. On the server side, the focus will be on the efficient handling of extremely massive data, on the incorporation of raw data (e.g., from LIDAR acquisitions), and on the efficient compressed streaming. Moreover, a combined (hybrid) solution using both 3D points and images will be researched.Completato€ 281.53
VOICES
No full textThere is widespread agreement that ICT services have the potential to play a major role in furthering social development in developing economies such as those in Africa. However, while there is a great deal of potential and opportunity, the amount and scope of actual mobile ICT services currently in existence in African countries is very limited.\n\nThe Mobile Web for Social Development Roadmap, recently published as a result of the FP7 Digital World Forum project, makes it clear that realizing the potential of mobile ICT services requires addressing two major types of challenges:\n1. The leveraging of content that is locally relevant; and\n2. The removal of a range of access barriers, notably limitations related to access channels, literacy, and languages.\n\nVOICES intends to take a major step forward in realizing the potential of mobile ICT services particularly in the African context and resolve key challenges outlined in the Mobile Web for Social Development Roadmap. To this end, the objectives of VOICES are to deliver:\n- Open and wider access: VOICES will improve voice-based access to content and mobile ICT services by building a toolbox for the development of voice services.\n- Integration of Local Community Radios and ICT.\n- Better support of languages: It will deliver tool support and methodology for under researched and under resourced African languages.\n- Long-term sustainability: To ensure the local adoption and exploitation of the VOICES tools and methods beyond the project, it will provide a sustainable architecture.\n- Faster uptake: VOICES will furthermore enhance uptake by delivering a mobile training lab that offers capacity building for local partners.\n\nVOICES will demonstrate the fitness of its results for adaptation to the African context by extensive local pilots and associated community building, namely through the focus on health services in Senegal, and agricultural and regreening knowledge sharing in the Sahel countries.Completato€ 193.30
Produzioni naturali e sostenibili in Sardegna
Full text linkIl programma di animazione "Produzioni naturali e sostenibili in Sardegna" intende favorire la crescita e l'innovazione dei settori legati alle produzioni naturali e sostenibili. Alla base del programma c'è la considerazione dell'importanza della Sardegna come bacino di risorse naturali per la bioarchitettura, l'edilizia sostenibile e per le produzioni sostenibili in genere. Il programma di animazione si articola in tre fasi: realizzazione di un repertorio delle produzioni naturali e sostenibili sarde finalizzato alla pubblicazione di un catalogo; ascolto degli operatori mediante incontri informativi sul territorio regionale e un convegno che prevede l'utilizzo della metodologia partecipata "metaplan"; promozione e divulgazione con l'organizzazione di una mostra/vetrina delle produzioni naturali e sostenibili sarde.Finanziamenti::POR Sardegna 2000-2006::Misura 3.1
CLIMB
Full text linkLa strategia di CLIMB è volta ad utilizzare ed integrare tecniche avanzate di monitoraggio sul campo, telerilevamento a distanza, confronto incrociato e verifica di modelli climatici, modellistica idrologica integrata e valutazione dei fattori socio-economici in un nuovo quadro concettuale per ridurre significativamente le incertezze esistenti nell'analisi dell'impatto dei cambiamenti climatici. Verrà realizzato uno strumento integrato di valutazione del rischio per la gestione adattiva delle risorse idriche e per le migliori pratiche agricole in condizioni di cambiamento climatico. Lo strumento per l'analisi di rischio e vulnerabilità consentirà, inoltre, la valutazione dei rischi di conflitto. I nuovi modelli e strumenti di valutazione ed i loro risultati saranno comparati con le attuali metodologie. I miglioramenti saranno comunicati a tutti i soggetti interessati e ai responsabili delle decisioni in modo trasparente e di facile comprensione, permettendo loro di utilizzare le nuove scoperte in materia di risorse idriche regionali e iniziative di gestione agricola, nonché di pianificare azioni per ridurre il potenziale di conflitto. CLIMB, insieme a WASSERMed e CLICO, è integrato in un gruppo di progetti della UE incentrati sui cambiamenti indotti dal clima sulle risorse idriche quale minaccia alla sicurezza. Il ruolo del CRS4 nel progetto riguarda l'auditing e la regionalizzazione dei modelli climatici e la modellistica idrologica integrata.The strategy of CLIMB is aiming to employ and integrate advanced field monitoring techniques, remote sensing analyses and retrievals, climate models auditing and integrated hydrologic modeling and socioeconomic factor assessment in a new conceptual framework to significantly reduce existing uncertainties in climate change impact analysis. It will create an integrated risk assessment tool for adaptive water resources management and best agricultural practice under climate change conditions. The risk and vulnerability analysis tool will also enable the assessment of risks for conflict-inducing actions. The improved models, new assessment tools, and their results will be evaluated against current methodologies. Improvements will be communicated to stakeholders and decision makers in a transparent, easy-to-understand form, enabling them to utilize the new findings in regional water resource and agricultural management initiatives as well as in the design of mechanisms to reduce potential for conflict CLIMB is embedded in a cluster of independent EU- projects with WASSERMed and CLICO, focused on climate induced changes in water resources as a threat to security. The role of CRS4 in the project deals with climate models auditing and downscaling and integrated hydrological modelingIn corso€ 201.58
Molecular changes induced by the curcumin analogue D6 in human melanoma cells
Full text linkBackground: In a previous report, we described the in vitro and in vivo antiproliferative and proapoptotic activity of a hydroxylated biphenyl (D6), a structural analogue of curcumin, on malignant melanoma and neuroblastoma tumours. In this paper, we investigated the molecular changes induced by such a compound, underlying cell growth arrest and apoptosis in melanoma cells.
Results: To shed light on the mechanisms of action of D6, we firstly demonstrated its quick cellular uptake and subsequent block of cell cycle in G2/M phase transition. A gene expression profile analysis of D6-treated melanoma cells and fibroblasts was then carried out on high density microarrays, to assess gene expression changes induced by this compound. The expression profile study evidenced both an induction of stress response pathways and a modulation of cell growth regulation mechanisms. In particular, our data suggest that the antiproliferative and proapoptotic activities of D6 in melanoma could be partially driven by up-regulation of the p53 signalling pathways as well as by down-regulation of the PI3K/Akt and NF-kB pathways. Modulation of gene expression due to D6 treatment was verified by western blot analysis for single proteins of interest, confirming the results from the gene expression profile analysis.
Conclusions: Our findings contribute to the understanding of the mechanisms of action of D6, through a
comprehensive description of the molecular changes induced by this compound at the gene expression level, in agreement with the previously reported anti-tumour effects on melanoma cells.Pubblicat
Intermolecular Interactions in Crystals: via experiment and theory to industrial application. International conference, Pula 28-30 april 2013
No full textBook of abstractThe conference will cover a number of topics in experimental and theoretical investigations on intermolecular Interactions in crystal solids and their impact on industrial applications.
The event will bring together researchers from Chemical
Industry, Key Universities and Research Centers of Europe.
Deadline for abstract submission 15th January, 2013.
The event is organized by CRS4 with support of the Ruhr University Bochum (RUB), Faculty of Chemistry within the DFG Project (German Research Foundation)2013-04-28PulaIntermolecular Interactions in Crystals: via experiment and theory to industrial applicatio
MONTIPRAMA
No full textThe "Soprintendenza ai Beni Archologici delle Province di Cagliari e Oristano" and CRS4 commit to a long term scientific and technological research plan on the 3D digitization of the Mont'e Prama statues, aimed at studying and applying innovative methodologies for multiresolution storage, distribution and display. This contract focuses on the first phase of the overall plan, concerning geometric and colorimetric acquisition and surface reconstruction.Completato€ 39.80
Coarse-grained Multiresolution Structures for Mobile Exploration of Gigantic Surface Models
Full text linkWe discuss our experience in creating scalable systems for distributing
and rendering gigantic 3D surfaces on web environments and
common handheld devices. Our methods are based on compressed
streamable coarse-grained multiresolution structures. By combining
CPU and GPU compression technology with our multiresolution
data representation, we are able to incrementally transfer, locally
store and render with unprecedented performance extremely
detailed 3D mesh models on WebGL-enabled browsers, as well as
on hardware-constrained mobile devices