Data Jamboree 2

Linking Evolution to Genomics Using Phenotype Ontologies:
Second Morphology Data Jamboree

A workshop hosted by the National Evolutionary Synthesis Center (NESCent).

Location and Date

Venue: Sylvan Lake Lodge http://www.custerresorts.com/sylvan-lake-lodge-custer-state-park-resort/ South Dakota

Date: September 27-October 1, 2008

Organizers: Paula Mabee, Monte Westerfield, Todd Vision, and Hilmar Lapp

Introduction

Purpose:

  1. Evaluation prototype database interface
  2. Character data entry by experts; introduce new curators to Phenote and data entry; test/enhance curation consistency; further refine curation interface
  3. Project personnel meeting

Agenda

Draft at Data_Jamboree_2/agenda for the program for each day.

Resources

For curators:

• Guide to Character Annotation
• Entering a taxon list
• Group exercise instructions
• Phenote User Guide (this also contains detailed instructions for downloading and running Phenote)
• Resources for curators

Reading

• We use the tag "phenoscape" on Connotea. Everyone is welcome to suggest references by using this tag.
• Relevant manuscripts by members of the project team:

1. Mabee PM, Ashburner M, Cronk Q, Gkoutos GV, Haendel M, Segerdell E, Mungall C, and Westerfield M. Phenotype ontologies: the bridge between genomics and evolution. Trends Ecol Evol 2007 Jul; 22(7) 345-50. doi:10.1016/j.tree.2007.03.013
2. Mabee PM, Arratia G, Coburn M, Haendel M, Hilton EJ, Lundberg JG, Mayden RL, Rios N, and Westerfield M. Connecting evolutionary morphology to genomics using ontologies: a case study from Cypriniformes including zebrafish. J Exp Zoolog B Mol Dev Evol 2007 Jun 28. doi:10.1002/jez.b.21181
3. Haendel, M.A., Neuhaus, F., Osumi-Sutherland, D.S., Mabee, P.M., Mejino J.L.V., Mungall, C.J., and Smith, B. (2008) CARO - The Common Anatomy Reference Ontology. In: Albert Burger, Duncan Davidson and Richard Baldock (Editors): Anatomy Ontologies for Bioinformatics: Principles and Practice. ISBN 978-1-84628-884-5.

Participants

Members of the project team are in bold font.

Name	Institution
Jim Balhoff	NESCent
Miles Coburn	John Carroll University
Wasila Dahdul	Department of Ichthyology, Academy of Natural Sciences
Hilmar Lapp	NESCent
John Lundberg	Department of Ichthyology, Academy of Natural Sciences
Paula Mabee	University of South Dakota
Peter Midford	Dept. of Ecology and Evolutionary Biology, University of Kansas
Todd Vision	NESCent, and Department of Biology, University of North Carolina at Chapel Hill
Monte Westerfield	Zebrafish Information Network (ZFIN) and Institute of Neuroscience, University of Oregon

Papers for Annotation

• Miles Coburn