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Enhancing Neuroinformatics: Collaboration, Databases, and Community Efforts in Neuroscience

This workshop led by Gwen Jacobs at Montana State University highlights the ongoing efforts to establish and improve identified neuron databases within the neuroscience community. Taking place on December 16-17, 2004, in Atlanta, GA, the event addresses key challenges in the field, including data annotation, management, and sharing. It emphasizes the importance of a cohesive ontology and compatible nomenclature in neuroscience. The workshop reflects on past initiatives while exploring new collaborations and future directions, such as opportunities presented by The Human Brain Project.

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Enhancing Neuroinformatics: Collaboration, Databases, and Community Efforts in Neuroscience

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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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