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GLOBAL BIODIVERSITY

WWW.GBIF.ORG. GLOBAL BIODIVERSITY. INFORMATION FACILITY. GBIF Cyber-Infrastructure for Sharing Biodiversity Data. Hannu Saarenmaa ECOINFORMATICS 2006 JRC, Ispra, 2006-01-17/19. GBIF’s objective is.

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GLOBAL BIODIVERSITY

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  1. WWW.GBIF.ORG GLOBALBIODIVERSITY INFORMATIONFACILITY GBIF Cyber-Infrastructure for Sharing Biodiversity Data Hannu Saarenmaa ECOINFORMATICS 2006 JRC, Ispra, 2006-01-17/19

  2. GBIF’s objective is • to establish the infrastructure for sharing scientific biodiversity data openly and freely on Internet • with initial focus on primary data at specimen and observation levels, and on names, • expanding to species-level information, • with links to molecular, genetic and ecosystems levels

  3. GBIF’s role in biodiversity information networks GBIF is a value chain / Countries

  4. What makes GBIF work(=recipe for cyber-infrastructure) • Standardised schemata for data sharing (XML) • Network of providers • Participant nodes promote and coordinate activities of data providers • Collaborative agreements • Control and ownership of data remains with providers • Procedures for interoperability • Web services, and in particular... • A global registry for advertisement of shared data • Integration at the GBIF Data Portal • Also others can build a thematic or national portal • Vision and leadership • GBIF mandate is unique • GBIF is multi-purpose open-ended cyber-infrastructure that enables biologists to serve the society in new ways. • ”GBIF somos todos.”

  5. How is GBIF data scaling up? • 1-3 billion physical specimens in museums • Label data digitising $1 / specimen - huge backlog • Hundreds of millions already existing digital data records in observer networks • 85 million records are online today through GBIF • 10-20% of existing data

  6. Real-time monitoring • Observation networks of citizens already contribute about one half of GBIF data • Natural resource surveys, agricultural research, etc., are being linked to GBIF

  7. GBIF role in indicator development SEBI2010 (Streamlining European 2010 Biodiversity Indicators) • Selected groups of organisms (birds, butterflies, fish, dragonflies, large mammals) for which large datasets exist will be used for SEBI2010 • No new monitoring - existing data collection networks will be used • These data sources could be mobilised through GBIF to create a real time indicator system for biodiversity • Requires agreements, incentives, tooling and support with the observer networks

  8. Top 20 of 160 GBIF Data Providers

  9. More thrust behind data sharing is needed • Solving of global problems requires integrated datasets that no single investigator or project can put together • Primary data is recyclable and multi-purpose • Citizens have the right to environmental information (Aarhus Convention) • Addressing ”the digital divide” requires equal access to data, information, knowledge • Efficient work sharing is behind progress and economy: • ”I have been standing on the shoulders of giants” – Isaac Newton

  10. Who is driving data sharing? • DDBJ/EMBL/GenBank – Molecular biology • WSIS - World Summit on the Information Society – Geneve 2003, Tunis 2005 • IPCC - The Intergovernmental Panel on Climate Change - Data Distribution Centre • Creative Commons, Science Commons, Conservation Commons • LSST - Large Synoptic Survey Telescope (&SETI) • GBIF (draft) recommendation to national research councils to require sharing of data

  11. Data sharing is part of the modern scientific method • Your work is not yet done after you have published your results. • You also must publish your data! • In molecular biology this is already the state of matter • But: Efficient data sharing requires a supporting information infrastructure

  12. The Next Generation of GBIF Cyber-Infrastructure Interoperability, integration and operational infrastructure for data sharing

  13. Informatics objectives 2007-11 • Better metadata support for the data sharing philosophy • Improve the user-friendliness and capabilities of the Data Portal • Enable through standard mechanisms Internet semantic searching for biodiversity data across all levels of biological organisation, from molecules to ecosystems • Provide tools for improving data quality and assessing fitness for use early in the 5-year period

  14. GBIF information system architecture (current) Resource Resource Resource Resource Resource Resource Metadata Metadata Metadata Metadata Metadata Metadata User Metadata and name query ( UDDI ) ( UDDI ) Provider query Index Index Data Portal Portal Registry Registry Request Marshaller Presentation Engine Metadata Metadata Cache Cache Institutions Providers Services Institutions Providers Services Available providers Metadata response Query Engine Query Engine Accounting Accounting Publish availability Metadata and statistics Full data response DiGIR DiGIR Full data query Synonyms SOAP SOAP Name provider Name provider Data provider Data provider HTTP HTTP Provider Services Provider Services Provider Services Provider Services other other Resource Resource Metadata Metadata

  15. GBIF to establish mirror sites on three continents Oak Ridge (TN), USA - Berlin, Germany - Deijon, Korea Started Q3/2005 Q1/2006 Q2/2006

  16. Data qua-lity is a big issue

  17. Design goals of the v2 data portal • Provision of infrastructure services to support the operation and use of the network, including: • Schema Repository – tools and resources to support use of biodiversity data standards (proposed, under design) • Service Registry – a directory of the shared biodiversity data resources (exists) • Data Index – index of the data relating to each taxon accessible through the network (existing prototype) • Globally Unique Identifiers – tools and services to support persistent identifiers for biodiversity data elements (allowing data to be referenced and retrieved subsequently) (proposed) • Feedback Services – tools to allow users to provide comments and feedback to data providers (existing prototype) • Data validation – chain of filters to scan automatically new data (exists) • HTML user interfaces to data held within the GBIF network. • Demonstration of the capabilities of the network. Stimulate the development of other portals for specific communities. Does not support all kinds of uses of data! • Web services interfaces to data available within the GBIF network.

  18. GBIF Mirror Portal GBIF National Portal

  19. Registry requirements to support data sharing • UDDI (today’s solution) only supports discovery • No metadata on access rights, IPR, use rules • Need to support giving credit for those who share and keep them in control • Limited support for various XML schema versions • ebRIM/ebXML supports electronic commerce • Exchange/trading – not sharing – too much • UDDI+RDF content registry might work

  20. Grimoires= UDDI+RDF

  21. How to contact GBIF • Web site: www.gbif.org • Data portal: www.gbif.net • GBIF Secretariat • Universitetsparken 152100 CopenhagenDenmark • E-mail: gbif@gbif.org • Phone: +45 3532 1470 • Fax: +45 3532 1480 • New GBIF Secretariat headquarters, supported by grant from Aage V. Jensens Fonde

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