PRO
Protein Ontology Kick-Off Meeting
The inaugural meeting of the Protein Ontology project will take place in Georgetown University on November 7-9, 2007. This is an internal meeting. Its goals are: to subject the PRO ontology to preliminary critique, and to establish plans for its further development, dissemination and use.
A draft program is as follows (names of proposed moderators for each session are given in parentheses):
Wednesday, November 7
Arrival of Workshop Participants
Dinner for Workshop Participants
Thursday, November 8
Location:
8:30am Continental Breakfast
9:00am-10:30am Session 1: Introduction to the Protein Ontology (Cathy Wu)
10:45am-12:15pm Session 2: The Protein Ontology and Its Neighbors (Darren Natale)
12:15pm- 1:30pm Lunch
1:30pm- 3:00pm Session 3: The Protein Ontology within the OBO Foundry (Barry Smith)
3:30pm- 5:00pm Session 4: Protein Ontology and Protein Data (Chris Mungall and Alan Ruttenberg)
6:00pm Dinner [Location to be Announced]
Friday, November 9
Location: ??
8:30am Continental Breakfast
9:00am-10:30am Session 5: The Protein Ontology and Its Users 1 (Helen Berman)
10:45am-12:15pm Session 6: The Protein Ontology and Its Users 2 (Judith Blake)
1:30pm- 4:00pm Session 8: Next Steps (Suzanna Lewis)
Protein Ontology Specific Aims
The Protein Ontology (PRO) project is funded by NIGMS / NIH Grant 1 R01 GM080646-01, PI: Cathy Wu.
The Aims of the project are:
Aim 1. Develop a Protein Evolution (ProEvo) ontology to describe proteins based on evolutionary relationships. In essence, ProEvo will reflect protein families (using sequence or structure similarities) in an ontology framework.
Aim 2. Develop a Protein Forms (ProForm) ontology to represent the multiple protein end-products from a gene. This will include "normal" and mutant forms, forms derived from different splice variants, and cleaved and post-translationally modified products.
Aim 3. Specify the relationships between the ProEvo, ProMod and other OBO Foundry ontologies. Several ontologies provide qualities that can be attributed to various forms of a protein or to an entire protein family. These qualities, in effect, can annotate the protein forms or families.
Aim 4. Disseminate PRO ontology, and demonstrate its usefulness in health-related research via scientific case studies.
Literature
Darren A. Natale, Cecilia N. Arighi, Winona Barker, Judith Blake, Ti-Cheng Chang, Zhangzhi Hu, Hongfang Liu, Barry Smith, and Cathy H. Wu, "Framework for a Protein Ontology", Proceedings of the First International Workshop on Text Mining in Bioinformatics, 2006, p. 29-36.[1]