ELIXIR and Industry - EMBL-EBI · European Life Sciences Infrastructure for Biological Information...
Transcript of ELIXIR and Industry - EMBL-EBI · European Life Sciences Infrastructure for Biological Information...
European Life Sciences Infrastructure for Biological Informationwww.elixir‐europe.org
ELIXIR and IndustryEurope’s emerging infrastructure for biological information
Dominic ClarkCo‐chair, Industry Stakeholders Committee
EMBL‐EBI Industry Programme Manager
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From molecules to medicine
Molecular components Integration Translation
Genomes
Nucleotides
Transcripts
Proteins
Complexes
Pathways
Small molecules
Structures
Domains
Cells
Biobanks
Tissues and organs
Humanpopulations
Therapies
Diseaseprevention
EarlyDiagnosis
Humanindividuals
The challenge: Life on the log scale
• Computer speed and storage capacity is doubling every 18 months and this rate is steady
• DNA sequence data is doubling every 5 months and this rate is increasing
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Guy Cochrane, ENA, EMBL‐EBI
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Supporting European industry
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Genome‐wide analysis of crop plants
• Population growth and climate change are major challenges to food security.
• Traditional routes to crop improvement are too slow to keep up with this increase in demand.
• Understanding plant genomes helps us identify which species will be most tolerant to drought, salt and pests while still providing optimum nutrition.
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Barcoding life• DNA barcodes are short sections of
DNA that we use to identify an organism.
• The Barcode of Life Initiative is developing DNA barcoding as a global standard for identifying species.
• Applications include:
• Protection of endangered species
• Sustaining natural resources through pest control
• Food labelling
Photo courtesy of Barcode Wales, National Botanic Garden Wales
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“…need new arrangements tosupport policies related toresearch infrastructures”
Where did Elixir come from?
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EuropeanCommission
Councilof the EU
EuropeanParliament
CompetitivenessCouncil
European StrategicForum on RI (ESFRI)
SeFrameworkSeven
InfrasRoadmap for Research Infrastructures
ReEuropeanResearch Area St
Innovation Strategy
Elixir
Timeline• 2000 Strasbourg Conference on RI• 2000 Lisbon strategy• 2000 European Research Area • 2002 Competitiveness Council• 2002 ESFRI• 2006 Innovation Strategy• 2006 Roadmap for RIs• 2007 Framework 7• 2007 Elixir Preparatory Phase• 2012 Elixir Implementation
Strasbourg Conference on RIEuropeanCouncil
StLisbonStrategy
ESFRI 13 Biological and Medical Sciences RIs
Connecting the Research Infrastructures
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BioMedBridges: ELIXIR and other research infrastructures
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medicine
environment
bioindustries
society
To build a sustainable European infrastructure for biological information, supporting life science research and its translation to:
ELIXIR’s mission
The financial reason for ELIXIR• Industry, from SMEs to big
multinationals, needs access to public data to analyse its proprietary data.
BenefitsELIXIRwill contribute to European innovation by:
• Strengthening the global position and influence of Europe in life‐science research in both in academia and industry
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WP3 Industry Drivers
• Avoid duplication of effort • Interoperability / compatibility of public / private data• Private access to public infrastructure• Storage / network cost minimization
WP3: European informatics infrastructure
• A pan European informatics infrastructure and associated services are considered essential to support the European knowledge economy.
• This will not be achieved efficiently if such infrastructure were to be based on uncoordinated and disconnected national infrastructure efforts.
• This pan‐European infrastructure should be attained through a well managed and maintained, service oriented, scalable, consumer focused delivery framework.
• The benefits to European industrial organisations of such a service oriented infrastructure are likely to be numerous.
• The opportunity to reduce duplication of internal effort will make European life science companies more competitive through significant cost reductions.
• The benefit of integrating external public data with internal data in an efficient way should greatly reduce the probability of overlooking significant facts in the interpretation of internal data.
• The improved insight into these data will lead to more informed decision making at critical points in the research/development pipeline. It is also felt that open innovation will be supported by these initiatives.
• The adoption of widely supported standards will reduce barriers between information sharing and help to facilitate cross company research partnerships
• But not trivial and we should not underestimate the associated challenges
WP3 Industry Stakeholder Report
• Industry strongly supports Elixir • Essential for European knowledge economy
• Initial focus on current core data resources• Consolidation / migration of appropriate niche resources
• Principle of unrestricted and open data access for all• Essential to avoid complex / bureaucratic licensing
• Industry requirement is for well defined services • Examples defined in WP3 report appendix
Maintaining open access
• Open access to life science is essential for advances in many areas of research
• Open access to bioinformatics resources provides a valuable path to discovery, one that in many other areas of research is limited by commercial confidentiality
• Charging for that data, or seeking to restrict accessthrough exercising Intellectual Property (IP) rights, would impede progress
• ELIXIR will guarantee that open access to biological data is maintained. Speaking with a single voicewill strengthen Europe’s influence in such global discussions.
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Mark Forster, Syngenta, member of the EMBL‐EBI
Industry Programme
Elixir Working with SMEs
• SMEs have different challenges from larger companies• Organising outreach and showcasing meetings hosted by
regional agencies.• Training• There may be an opportunity to extend this approach by working with the
ELIXIR nodes in combination with the regional agencies.
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Timeline
Dec 2013 Dec 2020
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ELIXIR Data Centre• UK funding has been used to purchase:
• 5‐year lease for space in commercial high‐security data centre
• Compute & networking to establish EBI external services in this secure environment
• Benefits of this option:• Provides secure service and 24/7 delivery• Electricity requirement can be met• Scalable• Allows just‐in‐time purchasing• Good networking and connectivity
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A distributed pan‐European infrastructure
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What will ELIXIR cost?
Hub
•Total capital costs: £74M
•Operating costs, 2012–2016: €28.5M
Nodes
•Cost will be determined by node coordinators, their host institutions and national / other funding organisations
•An estimation of resources needed to operate a node is provided in the ELIXIR Business Case
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The political reason for ELIXIR
• Distributed infrastructure provides member states:
• Access to expertise that is greater than the sum of its parts
• A say in how ELIXIR develops
• Some protection from fluctuations in the science budgets of individual nations
ELIXIR Node proposals as of Apr 2011