ELIXIR Safeguarding the results of life science research in Europe Bengt Persson. europe.org

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1 ELIXIR Safeguarding the results of life science research in Europe Bengt Persson europe.org

2 ELIXIR connects national bioinformatics centres and EMBL- EBI into a sustainable European infrastructure for biological research data medicine agriculture 2 environment bioindustries ELIXIR underpins life science research across academia and industry

3 Data growth in the life sciences 3

4 ELIXIR: the European Research Infrastructure for biological data ELIXIR connects national infrastructures and EMBL- EBI 11 Member states + EMBL Czech Republic, Estonia, Denmark, Finland,Israel, Netherlands, Norway,Portugal, Switzerland, Sweden, UK 6 countries working towards membership Belgium, Greece, France, Italy, Slovenia, Spain

5 A distributed infrastructure scales with the challenges ELIXIR deliver services through national ELIXIR Nodes ELIXIR Nodes build local bioinformatics capacity throughout Europe ELIXIR Nodes build on national strengths and priorities 5

6 ELIXIR Infrastructure Data Sustain core data resources Tools Services & connectors to drive access and exploitation Compute Access, Exchange & Compute on sensitive data Standards Integration and interoperability of data and services. Training Professional skills for managing and exploiting data 6

7 ELIXIR Infrastructure Data Sustain core data resources Tools Services & connectors to drive access and exploitation Compute Access, Exchange & Compute on sensitive data Standards Integration and interoperability of data and services. Training Professional skills for managing and exploiting data 7

8 Data Roaming Access of large, and growing, reference data sets Access human reference and study data Standardizing, curating and depositing large data- sets 8

9 What is an ELIXIR service? Reliable, Useful & Interconnected

10 ELIXIR Core Data Resources Small subset of ELIXIR data resources and archives Fundamental importance to life science Long term preservation and reuse of biological data Focal point of ELIXIR s technical and science policy actions for data sustainability

11 ELIXIR pilot: European Genome- phenome Archive as a joint venture Store genome data of over 100,000 people from 200 centres all around the world over 700 studies

12 ELIXIR pilot action: Process for applying access to the Nordic Control Database Applying access rights to Nordic control DB DAC secretary Principal Investigator Research group members End Research group members learn how to use the access rights Start Fill in or update an application and commit to the terms of use Submit application PI learns access has been granted/ denied Request amendments Informs PI on decision Technical check of the application Information on approval or rejection Implementation of DAC s decision Infomrs how to access Proposes approval or rejection DAC Approval, rejection or request to amend of the application Informs Operator Operator Single- sign on delivers: - Improved audit trails - Simplify management for Data Access Committee - Convenience for scientists Access grant? Yes Implement access rights for the research group No End Submission Sanity check Decision Implementation

13 ELIXIR Infrastructure Data Sustain core data resources Tools Services & connectors to drive access and exploitation Compute Access, Exchange & Compute on sensitive data Standards Integration and interoperability of data and services. Training Professional skills for managing and exploiting data 13

14 ELIXIR Named Services Quality indicator of the Service or Tool have clearly outlined terms of usage, declared service levels and monitoring vetted by the ELIXIR SAB as part of Node application Sustainability & Commitment to Service described in Service Delivery Plans annexed to the Hub- Node Collaboration Agreements Link to ELIXIR Training programme Rising tide development of European Bioinformatics services

15 Tools and Data Services Registry (ELIXIR- Denmark) A gateway to databases and tools Focus on both discovery and integration of these resources Comprehensive and up- to- date catalogue of resources interactive downloadable programmatic access. Also allows the community to upload their own resources to the registry following a simple log in procedure.

16 ELIXIR Tools and Data Services Registry

17 ELIXIR Infrastructure Data Sustain core data resources Tools Services & connectors to drive access and exploitation Compute Access, Exchange & Compute on sensitive data Standards Integration and interoperability of data and services. Training Professional skills for managing and exploiting data 17

18 Integration and interoperability of resources typically 40% of our effort in biomarker discovery is data integration J. Woijcek, CEO, Quartz Bio Formats, Ontologies, Guidelines, Professional skills for managing and exploiting data 18

19 Bring your own data - Hands on interoperability Problem- centered workshops Integration experts - Data resources Users ELIXIR funds external trainers Great feedback turning into programme

20 Data interoperability Human Protein Atlas The Human Protein Atlas portal is a publicly available database with millions of high-resolution images showing the spatial distribution of proteins in 46 different normal human tissues and 20 different cancer types, as well as 47 different human cell lines.

21 BioMedBridges! 7 62 Common links for Biomedical research infrastructures Computational data and service bridges between the BMS RIs Interoperability between data and services in the biological, medical, translational and clinical domains Link basic biological research data with clinical research and associated data 21

22 Promoting good data management

23 Supporting innovation in industry SME specialised events through ELIXIR nodes: Understanding of ELIXIR resources Meeting PI s of the resources Leverage the best out of ELIXIR resources

24 Data infrastructure for life- science research in Academia and Industry. >110M annual hits in EBI resources Patents in 2014: quoting Uniprot quoting Ensembl Data, Ontologies and resources behind industry driven KM efforts

25 ELIXIR Safeguarding the results of life science research in Europe europe.org

Enabling a federated environment to support biomedical research. Gianmauro Cuccuru CRS4

Enabling a federated environment to support biomedical research Gianmauro Cuccuru CRS4 ELIXIR connects national bioinformatics centres and EMBL- EBI into a sustainable European infrastructure for biological