Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Pascale Gaudet
President, ISB Executive Board
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Biocuration is achieved through the combined efforts of the research community, software and database developers, and biocurators. Experimental research community generate data
New research hypotheses
Biocurators, software and database developers organize the data and make the data available for all to use
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
From knowledge to problem solving • How can we prevent or cure diseases? • How can we achieve sustainable energy supply ? • How can we ensure safe and sufficient food and water supply?
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
The challenge • Modern research generates huge quantities of data • Publications are not easily amenable to computational analyses • Biology is difficult to model: - modular, contextual and adaptative - biological data is highly heterogeneous
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
What’s out there ? Database Collection 2010 (NAR): 1230 databases • Data repositories • Curated resources • Data integration knowledgebases • Many areas: proteins, protein structures, genes, genomes, protein-protein interactions, pathways, etc …
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
The real challenge… Researchers expect databases to be available, current, accurate, stable, user-friendly, comprehensive, free Funding for Data Management resources
Research Funding
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Common goals of the Biocuration community • Providing compatible infrastructures for data deposition, data exchange and analysis: - Common controlled vocabularies - Compatible tools, IDs, data formats • Balancing stability and innovation • Getting researchers involved • Ensuring sustainability
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
• Incorporated in 2009 • Currently 300 members • 150 groups and institutions
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Executive board 2010-2011
Terri Attwood Alex Bateman U. Manchester, UK Sanger, UK
Claire O’Donavan EBI, UK
Tanya Berardini Carnegie, USA
Lorna Richardson MRC, UK
Mike Cherry Stanford, USA
Tadashi Imanishi AIST, Japan
Pascale Gaudet SIB, Switzerland
Ioannis Xenarios SIB, Switzerland
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Special thanks
Lydie Bougueleret SIB, Switzerland Founding member Treasurer
Owen White University of Maryland, USA
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
ISB mission • Define and promote the work of biocurators
• Foster connections with user communities to ensure that databases and accompanying tools meet specific user needs • Promote communication and exchanges between curators: meetings, workshops, discussion forums, evaluation of resources, shared documentation on standards and annotation procedures
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Ongoing projects • Publicize the existence and goals of the ISB • Connect with journals, and publishers
• Conference organization • BioDBCore: Guidelines for Biological databases
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
• Working group includes a growing list of scientists from NAR database and DATABASE, MIBBI, Elixir, MODs, CASIMIR, etc • Goal is to provide Core Standards for Biological Databases defined by the community • To be announced in 2011 in an editorial
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Proposed Core Descriptors • • • • • • • •
Information stored/annotated Data release frequency Data formats Data submission policy Formats accepted Versioning / access to historical files Manually curated data (yes/no) Controlled vocabularies used
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
ISB website
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Publications
Nature Precedings : doi:10.1038/npre.2010.5134.1 : Posted 26 Oct 2010
Get involved! biocurator.org • Become a member of the International Society for Biocuration • Join the email list • Participate in the discussion forum
• Attend the International BioCuration Conference • View and suggest jobs and conferences of interest • Questions, comments:
[email protected]