Leech Neuronal Ontology Meeting

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June 26-27, 2008 Marine Biological Laboratory Woods Hole, MA

The meeting will be held in the Loeb building, room #32.

Goals of the Meeting

  • Create an ontology of neurons and neural circuitry for the Hirudo nervous system.
  • Learn about creation of ontologies
  • Determine what the needs are of Leech Researchers
  • Create a set of terms and definitions for the leech nervous system ontology


Thursday June 26th

  • 2:00-2:30 Introduction
  • 2:30-3:15 Basic Formal Ontology (BFO)
    • How do you think clearly about stuff in the world
    • learning how to make distinctions between things and processes.
  • 3:15-4:00 Defining the scope of the leech ontology
    • Developing use cases
  • 4:00-4:45 Other ontologies
    • PATOS, Subcellular, Cell ontologies
  • 5:00-7:30 break for dinner
  • 7:30-8:15 Logic
    • OWL – Web Ontology Language
    • RDF
    • Inheritance, inference
    • Semantic Web
  • 8:15-9:00 Tools
    • What programs are available and what do they do?
    • Protégé, OLS, bioportal, OBO edit and Phenote

Friday June 27th

  • 11:00am - noon Constructing the Leech Ontology
    • Dividing up the domain
      • neuron types
      • connectivity
      • spatial anatomy
      • behavior
      • gene expression
  • noon- 1:30 lunch
  • 1:30pm -2:30 NeuronBank
    • How to adapt NeuronBank to Leech Ontology
  • 2:30-? Additional time to work on problems that arise.


If you would like to attend, simply put your name and affiliation on this list.

  1. Paul Katz, Georgia State University
  2. Alan Ruttenberg, Science Commons, [1]
  3. Raj Sunderraman, Georgia State University
  4. Peter Brodfuehrer, Bryn Mawr College
  5. Angela Wenning-Erxleben, Emory University
  6. Michael Wright, Emory University
  7. Akshaye Dhawan, Georgia State University
  8. Bob Calin-Jageman, Dominican University
  9. Kathy French, UCSD
  10. Otto Friesen, University of Virginia
  11. William Kristan, UCSD
  12. Daniel Wagenaar, UCSD

Housing and Meals

Contact MBL housing. Tell them that you are an instructor in the Neural Systems and Behavior Course, but that you will be paying for housing yourself.

Meals are available at the cafeteria in the Swope Building at MBL. The cost is somewhat expensive ($9 for lunch).

Paul Katz has parking passes. Please park at a metered spot, get the pass, then drive to the Devil's lane parking lot and take a shuttle back. http://www.mbl.edu/services/serv_pshuttle.html

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