Needs Analysis Workshop
**Linking Evolution to Genomics Using Phenotype Ontologies:**
**Needs Analysis Workshop**
A workshop hosted by the National Evolutionary Synthesis Center
(NESCent).
Location and Date
Venue: National Evolutionary Synthesis Center (NESCent)
(directions,
also see information for
visitors)
Date: September 17-18, 2007
Organizers: Paula Mabee, Monte Westerfield, Todd Vision, and Hilmar
Lapp
Introduction
This workshop brings together scientists from the fields of morphology,
development, evolution, genetics, and ichthyology to define what
informatic tools need to exist in order to enable synthetic research
that takes full advantage of the accumulated data in each of these
fields. The workshop organizers are funded by NSF to develop a system
that provides web-based access to integrated evolutionary, anatomical,
developmental, and genetics data in the Ostariophysii, and to make the
software tools a community resource that can be more broadly applied.
Thus, a major goal of the workshop is to identify
driving biological
research questions that take advantage of these data to push the
limits of what is currently possible, and to identify what informatic
tools are needed in order to answer those questions. These will, in
turn, be distilled to Use Cases that drive the software development
activities at NESCent.
Final Report
For a summary of the outcomes of this report, see
here.
Agenda
Monday, September 17
- 8.30am NESCent introduction (K. Smith, J. Sturkey)
- 8.45am Introduction to Workshop
- 9.40am Opportunities and research challenges
- 10.25am Coffee break
- 10.45am Break-out groups
- 12.00pm Lunch break
- 1.15pm Continuation of break-out groups, with some participants
rotating to different groups
- 2.45pm Coffee break
- 3.15pm
Report-out from break-out
groups, and large group discussion (40mins per group)
- 4.40pm Discussion of topics for second day
- 5:00pm shuttle to Millennium Hotel
- 6:00pm shuttle from Millennium to Kanki restaurant (Charlene’s Safe
Ride, not the Millennium shuttle), 3504 Mt. Moriah Road,
Durham.
Reservations are for 6:30pm.
Tuesday, September 18
Logistics
- For long-distance participants, the hotel is the Millennium
Hotel
(2800 Campus Walk Ave, Durham, NC 27705; tel. (919) 383-8575)
- For dining & entertainment, NESCent is right across from Ninth
Street
- For the venue, NESCent is in the historic Erwin
Mills building
(directions)
Reading
- We have started to use the tag
“phenoscape”
on Connotea. Everyone is welcome to suggest references by using this
tag.
- Relevant manuscripts by members of the project team:
- 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>
- 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>
- 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 |
|——|——————————|