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Neuroinformatics efforts in the community

Neuroinformatics efforts in the community. Gwen Jacobs Montana State University Identified Neuron Database Workshop, Atlanta, GA December 16-17, 2004. We’ve done this before…. Establishing Identified Neuron Databases April 28 - 30, 1994/June 23 -24, 1994 National Science Foundation

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Neuroinformatics efforts in the community

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  1. Neuroinformatics efforts in the community Gwen Jacobs Montana State University Identified Neuron Database Workshop, Atlanta, GA December 16-17, 2004

  2. We’ve done this before…. • Establishing Identified Neuron Databases • April 28 - 30, 1994/June 23 -24, 1994 • National Science Foundation • Participants: • N.Carnevale, H. Chiel, R. Clayton, C.Comer, D.Edwards, S.Farbach, D. Gardner, N. Goddard, M. Halpern, S. Hooper, G. Jacobs, K.Kaiser, I.Meinertzhagen, J.Moore, D.Murphy, R.Murphey, C.Rankin, B.Robbins, M.Roberston, H.Rowell, B.Schatz, M.Siegler, N.Strausfeld, L.Tolbert, D.Weisblat

  3. That was then, this is now… • The Human Brain Project • The BIG Committee • The SfN Neuroinformatics Committee • The SfN Neuroscience Database Gateway

  4. The same challenges remain: • Data annotation: making your data accessible • A neuroscience ontology; controlled vocabularies, nomenclature standards • Data management: personal and community • Data sharing: building collaborations

  5. The Human Brain Projecthttp://www.nimh.nih.gov/neuroinformatics

  6. Types of grants funded by the Human Brain Project • Data-Base • F-MRI, Gross Anatomy, Physiology, Genes, Information/Education • Visualization- Structure Function • MRI, Cell and Small Cell Networks, • Neural Data Analysis • FMRI, electrophysiology, • Modeling - Synthesis of Data • Compartmental modeling, sensory systems

  7. Grants funded by the Human Brain Project

  8. The BIG Committee(Brain Information Group) • assessment of the breadth, depth and accessibility of current neuroscience databases; • the opportunities for, and benefits of, integration of these and future neurodatabases; • the requirements and continuing support options for maintenance and refinement of an information infrastructure for the neuroscience community.

  9. BIG Issues • Nomenclature/controlled vocabularies • UMLS - a start • Quality control of data in databases • Published/unpublished • Community interest/concerns with data sharing • NIH compliance • Requirements to make data available • HIPPA compliance • Privacy and security issues • Long term support of databases • Multi-source support

  10. Summary of findingshttp://web.sfn.org/content/Programs/NeuroscienceDatabaseGateway/whitepaper.html

  11. Action items for the community • Establish a Committee on Neuroinformatics • Develop the Neuroscience Database Gateway • Build a comprehensive ontology of neuroscience index terms • Collaborate with Society for Neuroscience • Journal of Neuroscience • Lower the barriers to data sharing

  12. Neuroinformatics Committee

  13. SfN Neuroinformatics Committee • Subcommittees: • Technology/Ontology • Dan Gardner, lead • Neuroscience Database Gateway • David VanEssen, lead • Interoperability • Maryann Martone • Journal relations • Paul Sternberg

  14. Types of available databases: • Databases of substantial neuroscience-related experimental data that is publicly accessible • Databases of neuroscience knowledge • Databases of tools and tool registries • links to neuroscience information portals (e.g., Human Brain Project, BIRN, BrainInfo Sites)

  15. The Neuroscience Database Gatewayhttp://big.sfn.org/NDG/site

  16. NIH Blueprint for the Brain:Building Collaboration and a Toolkit for the Future • 6 focus areas • Molecular • Cellular/Developmental • Systems/Circuits • Translational • Integrative/Shariing ideas and resources

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