PRO-PO-GO Meeting
PRO-PO-GO: Challenges of Ontology Coordination Across Organisms
A meeting designed to promote the coordination of the Gene, Protein, and Plant Ontologies and of other reference ontologies used in plant biology
Venue: Ramada Inn, Amherst, NY 14221
Date: May 15-16, 2013. The meeting will start at 10am on May 15 and conclude at 4pm on May 16.
Goals
The goals of this meeting are:
- 1. to inform members of the Protein, Plant, Gene Ontology and related communities of developments in their respective ontologies in order to promote cross-ontology coordination. Specifically:
- a. to enhance the PO treatment of plant-related proteins
- b. to address issues concerning reuse of GO terms to describe plant-related proteins, for example as concerns treatment of plant life cycle and development stages
- 2. to address general issues which arise when ontologies need to be extended to cover multiple model organisms
- 3. to contribute to the cROP (Common Reference Ontologies for Plants) initiative
- 4. To contribute to the ontological understanding of phenotype and disease in all model organisms.
- 5. to identify potentially fruitful applications which enhanced ontology coordination might bring.
Draft Schedule
Wednesday, May 15, 2013
10:00 From the OBO Foundry to cROP
- Outline of the cROP Framework (Pankaj Jaiswal)
Overview of Ontologies including Examples of Applications
- General Ontologies within the cROP Framework: CHEBI, CL, EnvO, GO, PATO, PCO, PRO
- Plant Ontologies within the cROP framework: PO, TO, EO, Plant IDO, Plant Disease
12:30 Lunch
13:30 The Coordinating Role of the Gene Ontology
- Promoting the Use of cROP Terms for Cross-Ontology Integration
- How to manage the relations between the GO:Biological Process and the PO:Development Stage ontologies
15:00 Break
15:30 Phenotype and Disease in Model Organism
- Defining Phenotype: PATO and Beyond
- Defining Disease
Thursday, May 16th, 2013
9:00 The Coordinating Role of the Protein Ontology
- PRO and Model Organism Research: Maintaining Ontologies Across Multiple Species
- PRO and UniProt
11:00 cROP Ontologies as Annotation Resources for New Plant Genomes
12:30 Lunch
13:30 Documenting Success Stories in Application of Annotated Genome Data
- Diversity research (Inter-Species)
- Discovering similarities and dissimilarities within organisms (Intra-Species)
- Identification of species for forensic purposes
- What are the structures involved in given biological processes (for example pollination)?
- What are the processes involved in given biological processes (for example of disease)?
Participants will include:
PO Consortium
- Laurel Cooper (Oregon)
- Maria A. Gandolfo (Cornell)
- Pankaj Jaiswal (Oregon)
- Barry Smith (Buffalo)
- Dennis Wm. Stevenson (New York Botanical Gardens)
GO Consortium
- Judith Blake (JAX)
- Jane Lomax (EBI)
- Chris Mungall (Berkeley)
PRO Consortium
- Cathy Wu (Delaware)
- Cecilia Arighi (Delaware)
- Darren Natale (Georgetown)
- Alan Ruttenberg (Buffalo)
Cell Ontology
- Alex Diehl (Buffalo)
BFO
- Stefan Schulz (Graz)
UniProt
- Claire O'Donovan (EBI)
- Maria Martin (EBI)
CHEBI
- Janna Hastings (EBI, Geneva)
Arabidopsis Information Portal
- Christopher D. Town (J. Craig Venter Institute)
The iPlant Collaborative
- Ramona Walls
TAIR
- Tanya Berardini (Stanford)
- Eva Huala (Stanford)
Other participants:
- Alexander Cox (Buffalo)
A limited number of places are available for additional participants. Please contact Barry Smith for further information.
Note that this meeting is co-located with the BFO 2.0 meeting, which will take place in Buffalo on May 13-14:
http://ncorwiki.buffalo.edu/index.php/2013_BFO_Meeting
Sponsors
