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10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
10th e concertation-brussels-06march2013-v2
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10th e concertation-brussels-06march2013-v2

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  • CarbonWaterCloud focusses on predictive modelling of carbon sink, primary production (including crop production) and hydrology of natural and transformed terrestrial ecosystems.
  • CarbonWaterCloud focusses on predictive modelling of carbon sink, primary production (including crop production) and hydrology of natural and transformed terrestrial ecosystems.The emphasize on access in this context is from the productivity standpoint of view. Open access policy on data makes infrastructure needs much more lean.
  • ‘inversion’ of existing infrastructure is about re-examining every element of data we have to re-construct the past biodiversity, as a guide and calibrator of models that can predict the future
  • Transcript

    • 1. Biodiversity Virtual e-LaboratoryAN E-INFRASTRUCTURE AND E-SCIENCEENVIRONMENT SUPPORTING RESEARCHON BIODIVERSITYAlex HardistyCoordinator, Cardiff University10th e-Concertation, 6-7th March 2013, BrusselsTrack 4: Digital environments for collaboration
    • 2. Creates powerful data processing tools Ecological Niche Modelling Biogeochemical modelling for biodiversity research Metagenomics• Carbon Sequestration Phylogenetics Population Modelling• Ecosystem Functioning and Valuation Taxonomy Geospatial Visualization• Invasive Species ManagementAn international virtual network of experts connecting2 scientific communities: biodiversity and ICT• Aims to foster cooperation in the community by: – Discussing scientific use cases – Identifying and deploying important Web Services – Designing and offering workflows – Training scientists
    • 3. Products are “services” and “workflows”• Workflows allow to process vast amounts of data, repeatedly – Build your own workflow: select and apply successive “services” (data analysis and processing steps) – Import data from one’s own research and/or from existing libraries (i.e. GBIF, Catalogue of Life)• Access a library of workflows and re-use existing workflows. – Improves efficiency by reducing Part of a workflow to study the ecological niche of the horseshoe crab research time and overhead expenses
    • 4. Supported by many friendsFits into a portfolioof initiatives • NoE: ALTER-Net, EDIT/PESI, LTER-Europe, EuroMarine, etc. • Projects: 4D4Life, agINFRA, Aquamaps, ArtDataBanken, BioFresh, Envri, EU BON, EUBrazilOpenBio, Fauna Iberica, i4Life, iMarine, Micro B3, OpenPlantBio, ViBRANT • Global: CAMERA, Catalogue of Life, COOPEUS, CReATIVE-B, EoL, GBIF, GSC Biodiversity WG, TreeBase, and many moreImportant contributionto infrastructure
    • 5. Where are we, the community in this process?We have users’ workflows andapplicationsWe have Service and Data Providers(LifeWatch, BioVeL, GBIF, CoL,EBI, etc.)We have Resource Providers(EUDAT, EGI.eu, PRACE,commercial cloud, etc.)
    • 6. Where are we, the community in this process? Complete?We have users’ workflows andapplications No! Maybe 10% ofWe have Service and Data Providers what is necessary(LifeWatch, BioVeL, GBIF, CoL,EBI, etc.)We have Resource Providers(EUDAT, EGI.eu, PRACE,commercial cloud, etc.)
    • 7. *A Decadal view of biodiversity informatics: Challenges and priorities • The Grand Challenge for Biodiversity Informatics – An infrastructure to allow the available data to be brought into a coordinated coupled modelling environment, capable of addressing questions relating to our use of the natural environment, that captures the variety, distinctiveness and complexity of all life on Earth • To achieve it we need: – To build user confidence – Integrative flexible e-Science environments – Predictive models across multiple scales, coupled* Alex Hardisty, Dave Roberts, and the biodiversity informatics community - 80 people took part in the open debate that led to this whitepaper. To be published in BMC Ecology
    • 8. To build user confidence• Thus far, all projects share a common problem of keeping services running after project funding ended• New models are needed • To create translational pipelines to industry adoption • To encourage institutional adoption for care and maintenance • For recognition of contribution other than through publication of academic papers– Stronger marketing and outreach • Invest more in up-skilling and hand-holding
    • 9. Integrative flexible e-Science environments• Using standardised building blocks and workflows – Interoperable components – With access to data from multiple sources• Recognise different kinds of VRE – General-purpose / specialised / single scientific objective • cf. chemistry laboratory vs forensics lab vs HIV vaccine lab • BioVeL / AquaMaps and iMarine / CarbonWaterCloud• Must generate immediate benefit for users – Science driven with scientists as active participants in creation of infrastructure – Functions people find useful; Simple and intuitive – Technology invisible (disappears into background)
    • 10. Predictive models across multiple scales• A new framework of methods, techniques, standards to bring about interoperability of data and models across different biological scales – From Genetic through species and ecosystem to landscape – Learn from Virtual Physiological Human and from Numerical weather prediction and climatology Edwards (2010). A Vast Machine – “General Ecological Models” Purves et al. (2013). doi:10.1038/493295a• Evolvable to incorporate new scientific insights – Re-analysis models• Making data we already have into global datasets – Implies ‘inversion’ of existing infrastructure
    • 11. Questions?BioVeL is funded by theEuropean Commission7th Framework Programme (FP7).It is part of its e-Infrastructures activity.BioVeL contributes to LifeWatch and GEO BON.BioVeL products are free to access.Under FP7, the e-Infrastructures activity is part of the Research Infrastructuresprogramme, funded under the FP7 Capacities Specific Programme. It focuses on the furtherdevelopment and evolution of the high-capacity and high-performance communication network(GÉANT), distributed computing infrastructures (grids and clouds), supercomputerinfrastructures, simulation software, scientific data infrastructures, e-Science services as well ason the adoption of e-Infrastructures by user communities.

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