Difference between revisions of "PRO-PO-GO Meeting"
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'''Date''': May 15-16, 2013. The meeting will start at 10am on May 15 and conclude at 4pm on May 16. | '''Date''': May 15-16, 2013. The meeting will start at 10am on May 15 and conclude at 4pm on May 16. | ||
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'''Goals''' | '''Goals''' | ||
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:a. to enhance the PO treatment of plant-related proteins | :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 | :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 contribute to the [http://wiki.plantontology.org/index.php/The_cROP_(Common_Reference_Ontologies_for_Plants)_Initiative cROP] (Common Reference Ontologies for Plants) initiative | + | *2. to address general issues which arise when ontologies need to be extended to cover multiple model organisms |
| − | * | + | *3. to contribute to the [http://wiki.plantontology.org/index.php/The_cROP_(Common_Reference_Ontologies_for_Plants)_Initiative 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''' | '''Draft Schedule''' | ||
| Line 19: | Line 22: | ||
:10:00 Challenges of Ontology Coordination: From OBO Foundry to cROP | :10:00 Challenges of Ontology Coordination: From OBO Foundry to cROP | ||
::The role of cross-products in ontology integration | ::The role of cross-products in ontology integration | ||
| − | ::Coordinating | + | :11:00 The Coordinating Role of the Gene Ontology: How to manage the relations between the GO:Biological Process and the PO:Development Stage ontologies |
:12:30 Lunch | :12:30 Lunch | ||
| − | :13:30 Phenotype and | + | :13:30 The Coordinating Role of the Protein Ontology |
| + | ::PRO and Model Organism Research | ||
| + | ::PRO and the Plant Ontology | ||
| + | ::PRO and UniProt | ||
| + | |||
| + | :15:30 Phenotype and Disease in Model Organism | ||
| + | ::PATO | ||
| + | ::Plant Disease Ontology | ||
| + | ::Defining Disease | ||
*Thursday, May 15, 2013 | *Thursday, May 15, 2013 | ||
| − | + | :9:00 The cROP (Common Reference Ontologies for Plants) Initiative | |
| + | ::Introducing PO, TO and EO | ||
| + | ::The Role of PRO and CL in cROP | ||
'''Participants will include:''' | '''Participants will include:''' | ||
Revision as of 16:41, 1 April 2013
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 to enhance coordination in ontology development and use in relation to plant genomics, proteomics and related fields. The meeting is designed:
- 1. to inform members of the Protein, Plant, Gene Ontology communities of developments in each of these ontologies, and in related ontologies such as the CL (Cell), TO (Plant Trait), ENVO (Environment), PATO (Phenotype) and IDO-Plant (Plant Infectious Disease) ontologies. 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 Challenges of Ontology Coordination: From OBO Foundry to cROP
- The role of cross-products in ontology integration
- 11:00 The Coordinating Role of the Gene Ontology: How to manage the relations between the GO:Biological Process and the PO:Development Stage ontologies
- 12:30 Lunch
- 13:30 The Coordinating Role of the Protein Ontology
- PRO and Model Organism Research
- PRO and the Plant Ontology
- PRO and UniProt
- 15:30 Phenotype and Disease in Model Organism
- PATO
- Plant Disease Ontology
- Defining Disease
- Thursday, May 15, 2013
- 9:00 The cROP (Common Reference Ontologies for Plants) Initiative
- Introducing PO, TO and EO
- The Role of PRO and CL in cROP
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
